Innovative eScience Technologies for ‘Big Science’ (eTEC-BIG)

Innovative eScience Technologies for ‘Big Science’ (eTEC-BIG)

The Netherlands eScience Center invites ‘Big Science’ researchers and ICT researchers to apply for funding to address innovative compute-intensive and/or data-driven research problems.

Purpose of this call

This call for proposals aims to support research and development of innovative eScience technologies and software associated with big data handling, big data analytics and related computational methods, driven by a direct demand from any research area that can be identified broadly by the term ‘Big Science’. 

In the context of this call, ‘Big Science’ broadly indicates those scientific research directions 1) whose challenges in terms of complexity and 2) whose needs in terms of data analytics and data management capabilities, as well as processing power, far exceed that of other research endeavors today. Typically, technological developments in Big Science domains are expected to arrive in – and impact – other (non-Big Science) domains only years or even decades later.

Each project must focus on one of the following ‘Technological Research Directions’:

I. Scalable Machine Learning & AI
II. Processing of Streaming Data
III. Large-scale (Distributed) Data Organization, Management & Semantics

Projects awarded in this call for proposals typically will be led by either:
- a technology-oriented PI from the selected Big Science research area or
- a domain-oriented PI from ICT Science (i.e. a technical discipline such as data science or computer science). In this case, it is required to include at least one co-applicant & team member from the selected Big Science research area.

Available Budget

In this call, each grant will consist of three parts: 

1) a cash contribution for the employment of local research personnel and other expenses,
2) in-kind support in the form of skilled eScience Research Engineers employed by the eScience Center, and
3) in-kind support in the form of advanced Technology & e-Infrastructure Experts employed by SURFsara. 

The total available budget is as follows: k€ 510 in cash funding, 3.9 Person Years (PYR) eScience Center in-kind funding, and 3.0 PYR SURFsara in-kind funding. With a total of 3 projects to be awarded, a typical project will receive k€ 170, 1.3 PYR in-kind eScience contribution, and 1.0 PYR in-kind SURFsara contribution. 

When to apply

The deadline for the submission of pre-proposals is Thursday 9 May 2019, 14:00 CET.
The deadline for submission of full proposals is Thursday 29 August 2019, 14:00 CET.

Information event

To further inform interested applicants of the specific aims of this call for proposals, the mission and approach of both the eScience Center and SURFsara, the role and expertise of the eScience Research Engineers and the SURFsara Technology & e-infrastructure Experts, the software technologies implemented and applied by the eScience Center and SURFsara, and the specific capabilities of the Dutch National e-Infrastructure, an information event will be organized at Amsterdam Science Park on 9 April 2019. Registration is required (see below). Presence of at least one team member at the event is highly recommended, but not mandatory.

Program

13:30 – 14:00 Arrival & Coffee
14:00 – 14:20 General introduction: eTEC-BIG Call for Proposals (Frank Seinstra) Download Presentation
14:20 – 14:50 Netherlands eScience Center & Core Technological Competences (Frank Seinstra + Jason Maassen) Download Presentation
14:50 – 15:00 Break
15:00 – 15:30 SURFsara, Technological Expertise & SURF e-Infrastructure (Axel Berg) Download Presentation
15:30 – 16:00 Collaborative Science at/with the Netherlands eScience Center (Meiert Grootes) Download Presentation
16:00 – 16:30 Remaining questions
16:30 Drinks

Downloads

Submit your proposal

Please submit your proposal using NWO's electronic application system ISAAC:

Submit here

Registration eTEC-BIG information event

Register

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The eTEC-BIG Information Event will be held on

Tuesday April 9 2019 (13:30 - 16:30)

at:

Netherlands eScience Center
Science Park 140
1098 XG Amsterdam
The Netherlands.

The information event will be held at the Netherlands eScience Center groundfloor room VK1 + VK2.

Contact

Director eScience Program Dr. Frank Seinstra

Frank supervises the development, implementation, and research of innovative eScience solutions in multidisciplinary research projects. He is a strong advocate of applying (and re-using) the latest results of state-of-the-art ICT research in large-scale compute- and data-intensive problems in various scientific research areas.

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Efficient Computing

Efficient Computing

Optimizing for hardware performance

Whenever computer architectures and chip designs change significantly, as happens frequently, new algorithms are needed to exploit these developments for their performance benefits. 

As the ambition of discipline scientists grows, in addition to the growth in data they analyze, the need to ensure the efficient use of computing resources also grows. 

Code can be optimized for performance and run on the most appropriate machine, including accelerator hardware, with energy usage at a minimum.

Example: Distributed & heterogeneous computing

Despite the rapid growth in compute power, data growth and the ambition of domain scientists continues to grow faster. Compute power therefore remains at a premium requiring us to find newer and more efficient ways to utilize this component of the e-infrastructure. 

When performing any large computation (for example simulations or signal processing) it should be remembered that some codes may run best on a supercomputer while others may run best on a cluster, for some models accelerators suchs as GPUs will be most efficient, and so on. 

We develop distributed & heterogeneous computing methods that allow individual components of large parallel applications to be deployed on the resource having the best characteristics (performance, energy, financial) for that particular problem. The application of distributed & heterogeneous computing have been crucial in projects for point cloud processing, digital forensics, astrophysics and climate simulations.

This expertise area includes

  • Accelerators
  • Distributed Computing
  • High Performance Computing
  • Numerical Modelling and Algorithms
  • Workflows and Orchestration

Contact

Technical Lead Efficient Computing Dr. Jason Maassen

Jason is interested in topics related to large scale distributed computing. At the Netherlands eScience Center he works on climate research projects.

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Optimized Data Handling

Optimized Data Handling

Accessing and analyzing voluminous and rapidly generated data

Scientific data are generated at increasing speed and abundance due to the miniaturization and parallelization of experiments, the deployment of (remote) sensors and the digitization of experimental practices. In the internet age, data can be shared as rapidly as they are generated, facilitating contemporary collaborative science and knowledge sharing.

The development and application of methods to enable scientists to access and analyze voluminous and rapidly generated data, from radio telescopes to social media, are becoming universally important. 

Example: Sensor networks

One specific area of optimized data handling in which we develop expert knowledge is the management and analysis of sensor network systems. Around us is an increasingly complex set of ever more sophisticated, in many cases distributed, sensor networks monitoring any number of dynamic processes. 

Sensor networks are used to monitor climate conditions, traffic flow, human physiology and health, emergency detection (fires etc), structural health of buildings, vehicle telemetry and machine process management. 

At the same time, novel scientific instruments also generate increasingly large sensor data streams. The science to manage and analyse sensor networks is dependent on disciplines such as wireless communications, protocols, signal processing, embedded systems, streameddata analysis, distributed algorithms, and data management. 

In projects such as  Summer in the City and Beyond the Data Explosion we develop expertise and software to tackle the challenges of sensor network systems.

This expertise area includes 

  • Data Assimilation and Integration
  • Databases
  • Handling Sensor Data
  • Linked Data and Semantics
  • Real-Time Data Analysis

Contact

Technical Lead Data Management Dr. Romulo Gonçalves

Romulo is the Tech Lead for Data Management. He is responsible to foresee which technological directions on optimized data handling NLeSC should follow to enable Space, Earth and Life Sciences short- and long- term research agendas.

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Big Data Analytics

Big Data Analytics

Identifying patterns and relationships

Structured and unstructured data. From data to information to knowledge to insight. Current research challenges demand robust and reliable methods to identify the patterns and relationships contained in, but also obscured by, large amounts of disparate data. 

eScience approaches can enable researchers to recognize sources of relevant information, prepare raw data, use statistical tools, extract meaningful information, recognize potential problems and make visualizations to communicate their findings. 

With the application of statistics and applied mathematics at its core, the use of data-analytics and visualisation are generic requirements for many scientists. Combining ‘big data’ with theory and conceptual models will enable scientists to structure the wealth of data and provide skilful forecasts.

Example: Natural Language Processing

Sources of natural human language, such as emails, web pages, tweets, product descriptions, newspaper stories, social media and scientific articles are a central feature of the so-called Big Data explosion. Within these various media is a wealth of information, connections, patterns and hidden knowledge of academic, social and commercial value. Add to this the volume of digitized historical records and texts, covering thousands of languages, formats and varieties and the potential to unlock new insights becomes almost limitless but also hugely complicated and challenging. 

The science of analyzing human language is natural language processing (NLP) and its applications are already part of our everyday lives. Spelling and grammar correction in word processors, translation tools on the web, email spam detection and automatic question answering are all forms of NLP. 

In humanities research (our focus for NLP applications) a number of newer NLP challenges exist. These include detecting people’s opinions (sentiment analysis), producing readable summaries of chosen text, identifying the discourse structure of connected text, identifying the relationships among named entities and selecting the correct meaning of words which intrinsically have multiple meanings.

This expertise area includes 

  • Computer Vision
  • Data Mining
  • Machine Learning
  • Natural Language Processing
  • Statistics
  • Visualization

Contact

Technical Lead Data Analytics Dr. Elena Ranguelova

Elena is specialized in image processing, and works as an eScience Engineer on medical imaging and other multidisciplinary projects.

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Over 350 international participants for eScience Conference 2018

Over 350 international participants for eScience Conference 2018

From 29 October – 1 November 2018 over 350 people participated in the fourteenth International eScience Conference. The conference successfully brought together leading international researchers and offered a platform for digital technologies to advance research - from the humanities to the physical sciences.

There was a varied program with accepted talks, workshops, tutorials, a poster session and reception, a special session on Open Science, a canal cruise through Amsterdam’s city center and a conference dinner at the Dutch National Maritime Museum which included the award ceremony for the Dutch Young eScientist 2018.

Conference highlights

Special features

The conference featured a Workshop & Tutorial day (read more below) and a Parallel Focus Session day – in the latter we provided a stage for researchers in academic disciplines to present how digital technology is advancing their research. The Parallel Focus Sessions covered the research themes “Weather & Climate Science in the Digital Era”, “Data Handling and Analytics for Health”, “Advances in eScience for the Humanities and Social Sciences” and “Exascale Computing for High Energy Physics” (read more below).

Keynotes

Several keynote speakers were invited for the conference – two for the plenary sessions eScience and five for the different Parallel Focus Sessions. The conference kicked-off with a keynote by Melissa Terras (University of Edinburgh, UK) on “Data Science or Data Humanities? Opportunities for Digitally Enabled Analysis of History, Culture and Society”. Joeri van Leeuwen (ASTRON, the Netherlands), gave the final keynote of the conference on “Real-time analysis in data-intensive Astronomy”. Other invited keynotes were Wessel Kraaij (Leiden University), Tony Veale (University College Dublin), Peter P. Neilley (The Weather Company), Miron Livny (University of Wisconsin-Madison), and Kate Jones (University College London).

Open Science Session

On the first day of the conference a special session on Open Science was organized in collaboration with the Netherlands Organisation for Scientific Research (NWO) and the Netherlands Collaborative organisation for ICT in Dutch education and research (SURF): “Making Open Science a reality: Rewards, Incentives & Support”.

In this interactive session, Stan Gielen, President NWO will joined up with Erik Fledderus, CEO of SURF to discuss the changes needed both in policy and practice in order to make open science the modus operandi in the research community. As policy shapers within the field of open science, they shared their visions and ideas on how to create a sustainable open science system that rewards and supports scientists for practicing open science. Stan and Erik will invited the participants to join in on a discussion about the practical aspects of open science. The feedback from the research community on open science was highly appreciated and was a step forward in connecting policy and support to practice.

Conference dinner and Young eScientist Award 2018

This year’s conference dinner took place at the Dutch National Maritime Museum, where we also announced the winner of the Dutch Young eScientist Award 2018. The prize aims to stimulate a young scientist demonstrating excellence in eScience. Esther Bron from Erasmus Medical Center, Rotterdam was announced as winner. You can read more about Esther’s research on Alzheimer’s disease here. We hope Esther's research will inspire and encourage other young eScientists to enter next year’s competition!

Best Poster Award

Throughout the conference participants could view accepted posters on a wide range of eScience topics, and interact with the makers during the conference reception. Philips provided this year’s best poster award, which was won by Lise Stork. Lise’s poster addressed the challenge of linking natural history collections, and she is invited to one of Philips’ Research sites (most closely connected to their area of work) for scientific interactions and presentations.

Parallel Focus Sessions

Weather & Climate Science in the Digital Era
The focus of this session was on data and compute intensive approaches that are applied in weather and climate science. The session included 10 oral abstract presentations, one keynote talk, and 6 short poster pitches. The resulting session program reflected a wide spectrum in technologies, ranging from machine learning to distributed data handling, workflow systems and multiscale modeling. Both scientists from domain science, and computer and data sciences joined the session. 

Data Handling and Analytics for Health
The objective of the session was to bring together expert developers and (potential) users of digital health technologies, with a special focus on technologies for data handling and analytics. The session included 13 oral abstract presentations, two keynote talks, and 6 one-minute poster pitches. The session program reflected a wide spectrum in technologies, ranging from workflow systems to advanced machine learning, which are applied to an equally wide spectrum of health applications, ranging from health registry data, to wearable sensor data and genome sequencing. 

Advances in eScience for the Humanities and Social Sciences
This session provided a forum where technologists and scholars in the humanities and social sciences could showcase their novel eScience technologies, or previously existing eScience technologies which have found new applications in these domains. The session kicked-off with the keynote “Once More With Feeling! Opportunities and Challenges in Affective Machine Creativity” by Prof. Tony Veale. The session also showcased 13 oral presentations covering a diverse range of technology topics as well as diverse application domains. Technology topics range from natural language processing to network analysis; domain applications cover areas including history, philosophy and economics. To close the day, in the stargazing session “eScience for the H&SS - Challenges of today and tomorrow”, a panel of experts shared and discussed their views on current and future eScience challenges in Humanities and Social Sciences.

Exascale Computing for High Energy Physics
The goal of this parallel session was to address the challenges that HEP will face in the next decade, with a focus on the huge amount of data that the planned experiments will produce, its reduction, processing and efficient analysis. The session promoted collaboration between experts from HEP and Computer Science, addressing the challenges in a sustainable and scalable fashion. The session included a keynote talk by Prof. Miron Livny, 12 presentations, an interactive session and a couple of posters. The session spanned a wide range of topics and approaches, ranging from workflows to distributed computing and advanced machine learning. All the participants engaged in a fruitful and open discussion about the future of Exascale computing for HEP.   

Workshops & Tutorials

Workshop - Generic components of the eScience Infrastructure Ecosystem
Nikhef (National Institute for Subatomic Physics), The Netherlands
Website: https://www.nikhef.nl/pdp/meetings/generic-components-18/

Workshop - International Workshop on Sustainable Software for Science: Practice and Experiences (WSSSPE 6.1, 2018)
Information Technology Group, Wageningen University, The Netherlands
Website: http://wssspe.researchcomputing.org.uk/wssspe6-1/

Workshop - Workshop on Research Objects (RO2018)
School of Computer Science, University of Manchester, United Kingdom
Website: http://www.researchobject.org/ro2018/

Workshop - “eScience-FAIR Science” by PLAN-E
The Platform of National eScience Centers in Europe (PLAN-E)
Website: https://plan-europe.eu/documents/workshop-1-questions-and-topics/

Workshop - platform-driven e-infrastructure innovations
Ludwig-Maximilians-Universität München, Institut für Informatik, Germany
Website: http://www.process-project.eu/workshop/workshop-platform-driven-e-infrastructure-innovations/

Workshop - Handling Uncertainties in Big Data (HUBD)
TNO, The Netherlands
Website: https://www.tno.nl/en/about-tno/events/2018/workshop-handling-uncertainties-in-big-data-hubd/

Workshop - Designing Benchmarks for Measuring Automatic Algorithm Performance on Research Data
SURFnet, Utrecht, the Netherlands & Netherlands eScience Center, Amsterdam, the Netherlands
Website: https://nlesc.github.io/IEEE-eScience-Tutorial-Designing-Benchmarks/

Tutorial - Contemporary Peer Code Review in Scientific Software Development
Department of Computer Science, University of Alabama
Website: https://se4science.org/tutorials/escience18/

Conference proceedings

The conference proceedings are available online for participants (please follow this link - participants of the conference have received login details via email).

Thanks to our sponsors

The conference would not have been possible without the support of many sponsors whom we would like to thank: Dell EMC, NWO, SURF, Atos, World Meteorological Organization, Moore Foundation, Philips, Nikhef, Cray, HUBzero, Target Proeftuin en Kudos.

15th International eScience Conference

The 15th International eScience Conference will take place in October 2019 in San Diego, USA. More information will be provided at https://escience-conference.org/

Photography by Elodie Burrillon / HUCOPIX and Michiel Wijbergh

eScience Research Engineers

eScience Research Engineers

Job Opportunity: eScience Research Engineers 
Full-Time: 38-hour working week
Master degree or PhD with programming and/or data science skills

The Netherlands eScience Center is the Dutch national center of excellence for the development and application of research software to advance academic research. We are convinced that research in every academic discipline can be improved by taking advantage of available digital technology. We take a multidisciplinary approach, combining our deep knowledge of both academic research and software development to help define and solve research challenges. We share our ideas and the tools we develop. Together with a wide range of partner organizations, we advance not just our research projects, but the state of academic research in general.

We are looking for several enthusiastic: 

eScience Research Engineers 
Having deep knowledge of both academic research and software development
to help define and solve research challenges

The position:
eScience research engineers have an academic background and are interested in developing and applying research software within academic disciplines. They also actively share their knowledge and experience with the academic community. As an eScience research engineer you will operate in an academic environment. You will be responsible for the translation of research questions into solutions that effectively apply advanced digital technologies. You will develop high-quality software and ensure that these can be used easily by academic researchers. Our eScience research engineers work as a team, creatively combining and sharing knowledge between projects. It is likely that you will work part time at the eScience Center in Amsterdam and part time at a university or research institute participating in collaborative projects. The persons we are looking for are capable of quickly adopting new technologies and are able to contribute to academic publications.

 

We require:
• Completed master degree or PhD with programming and/or data science skills;
• Solid programming experience with different programming languages (Python, C++, Java, or Fortran);
• Excellent command of English, both verbally and in written communication.

We are particularly interested in candidates having experience in one or more of the following areas:
• Developing applications that run on high-performance computing platforms (GPUs, clusters, supercomputers, etc.).
or
• Developing and optimizing machine learning and deep learning frameworks for the processing of large data sets.
or
• Developing physics based simulations for either: weather and climate models, hydrological models, material science, and multi-scale modelling.
or
• Digital Humanities, for example: text mining, Natural Language Processing (NLP).
or
• Using advanced data handling or semantic web technologies to enhance data-driven research, for example in life-sciences.


Competences:
• Collaborative: you are eager to collaborate with experts from different academic domains and technology areas to gain new insights;
• Open: you are convinced that research software and knowledge should be shared freely, and you reach out to academic communities to achieve that;
• Resourceful: you look for new ways to define and solve research challenges, using the eScience Center's extensive pool of knowledge and tools;
• Pro-active: you take responsibility for your work and actions and you make your own decisions in order to achieve your goals.

Working conditions:
We offer a position at the eScience Center for a fixed period of 2 years within the collective agreement for Dutch Research Institutes (cao-OI). The candidate will be based at the Netherlands eScience Center in Amsterdam. 

Classification is based on education and experience with salary depending on qualifications and experience, starting from € 2.736,- up to € 5.064,- gross per month, with a 38-hour working week (salary scale 10-11). Holiday pay amounts to 8% of the gross salary and we also offer a 13th month of salary as an end-of-year payment. 

Information:
The eScience Center offers an interesting and challenging work environment with attention to personal development and diversity. You will work within an international team in an informal but creative and ambitious atmosphere. The main location is Amsterdam on the Science Park campus. The eScience Center has an active diversity policy and encourages women and minorities to apply. 

For more information about this opportunity you can contact Nicolas Renaud, eScience Research Coordinator at n.renaud@esciencecenter.nl. Please send your resume and application letter before December 10th, 2018 to vacancy@esciencecenter.nl.

Operations/Facility Support Manager

Operations/Facility Support Manager

Job Opportunity: Operations/Facility Support Manager
Dienstverband: 16 uur per week
Opleidingsniveau: MBO/HBO werk- en denkniveau

Het Netherlands eScience Center is op zoek naar een parttime medewerker Operations/facilitair medewerker. Als facilitair medewerker is geen dag hetzelfde. Toch is het belangrijk dat je gestructureerd te werk gaat. Je past goed binnen deze functie wanneer je klantgericht bent en het leuk vindt om regelmatig in contact te zijn met interne collega’s. Daarnaast ben je proactief en onderneem je actie zodra je klussen of onregelmatigheden opmerkt.

Het eScience Center is een jonge en ambitieuze organisatie met een betrokken team. De startup-achtige sfeer wordt erg gewaardeerd door onze internationale werknemers. Er zijn veel mogelijkheden om kansen te pakken en jezelf te ontwikkelen. Daarnaast bieden wij een goed secundair arbeidsvoorwaardenpakket aan met onder meer een eindejaarsuitkering, goede pensioenregeling en een ruime verlofregeling.

Wat ga je doen?

Als medewerker Operations/facilitair medewerker ben je verantwoordelijk voor het facilitair management waaronder inkoop, IT-support en kleine administratieve/facilitaire werkzaamheden. Daarbij zoeken we ook iemand die het leuk vindt om ervoor te zorgen dat alles goed verloopt binnen het eScience Center. Denk bijvoorbeeld ook aan: alle snoeren in de vergaderkamers en werkplekken netjes wegwerken, installeren van een conference call toestel in de vergaderkamer, lampen vervangen, keuken netjes houden etc.

We zoeken een oplossings- en servicegericht persoon. Je denkt mee hoe je de organisatie professioneler kunt maken en hoe je processen efficiënter kunt inrichten.

De uren van de functie zijn over vier dagen in de week te verspreiden of op twee dagen uit te voeren. Het is de bedoeling dat je in elk geval de donderdag aanwezig bent (overige uren in overleg).

Deze baan is dus goed te combineren met andere bezigheden zoals een eigen bedrijf, studie of gezin.

Takenpakket:

  • Het ondersteunen en uitzoeken van IT-oplossingen voor de werknemers.
  • Het testen, installeren en onderhouden van verschillende hard- en software.
  • Het organiseren van zaken rondom huisvesting en inrichting.
  • Verzorgen van de inkoop van apparatuur en meubilair en contact onderhouden met leveranciers.
  • Het medevormgeven van het beleid rondom IT, data, privacy en veiligheid.
  • Opstellen van uiteenlopende documenten en overzichten van administratieve gegevens.
  • Zorgen voor het functioneel en op orde houden van de werkplekken en algemene ruimtes.

In deze functie werk je nauw samen met de adviseur Human Capital, de financiële medewerker, de secretaresses maar ook met de Director Operations. We zijn als organisatie hard aan het groeien. Daarom kijken we naar wat je kunt en spelen daar op in binnen de ontwikkeling van deze functie.

We nodigen starters van harte uit om te solliciteren.

Jouw profiel:

  • Je hebt minimaal een MBO/HBO opleiding of equivalente werkervaring;
  • Een goede beheersing van de Engelse en de Nederlandse taal in woord en geschrift;
  • Uit werkervaring of activiteiten tijdens bijvoorbeeld studie (vermelden in je motivatiebrief en/of op je CV) blijkt affiniteit met facilitair management;
  • Uit activiteiten op je CV of werkervaring blijkt dat je je thuis voelt in de IT;
  • Je kunt goed overweg met het Microsoft Office packet;
  • Je hebt een pro-actieve werkhouding en durft op mensen af te stappen;
  • Samenwerken staat bij jou voorop en je bent in staat om met een grote verscheidenheid aan mensen te werken;
  • Ervaring met het schrijven van notities is een pré.

Wat wij jou bieden:

Een aanstelling van vooralsnog maximaal één jaar, voor 16 uur per week. Salariëring, afhankelijk van opleiding en ervaring, van minimaal € 2.001,- tot maximaal € 2.798,- bruto per maand (schaal 6 van CAO-Onderzoekinstellingen 2019), bij een 38-urige werkweek. Het Netherlands eScience Center kent gunstige secundaire arbeidsvoorwaarden waaronder een eindejaarsuitkering van 8,3% en 8% vakantietoeslag.

Interesse?

Stuur je motivatie en CV uiterlijk 2 december 2018 per email naar vacancy@esciencecenter.nl.

Wil je meer weten over het Netherlands eScience Center, bezoek dan onze website www.eScienceCenter.nl. Voor meer informatie over deze vacature kun je contact opnemen met dr. Aletta Debernardi, Director Operations (a.debernardi@esciencecenter.nl).

Bij het eScience Center hanteren we een actief diversiteitsbeleid. We zijn bewust op zoek naar nieuwe medewerkers met een achtergrond die ondervertegenwoordigd is in de organisatie. We moedigen daarom vrouwen en minderheden aan om te reageren.

Acquisitie naar aanleiding van deze vacature wordt niet op prijs gesteld.

Human Capital Advisor

Human Capital Advisor

Job Opportunity: Human Capital Advisor
Dienstverband: 16 uur per week
Opleidingsniveau: HBO/WO opleiding of equivalente werkervaring

Het Netherlands eScience Center is op zoek naar een part-time Human Capital adviseur. Bij het eScience Center zijn we ervan overtuigd dat wetenschappelijk onderzoek versterkt kan worden door de inzet van digitale technologie. Ons multidisciplinaire team, dat bestaat uit meer dan 65 medewerkers, heeft veel kennis van software ontwikkeling én van wetenschappelijk onderzoek in uiteenlopende disciplines. Sinds onze oprichting meer dan zes jaar geleden hebben we met meer dan honderd wetenschappelijke teams samengewerkt, van sociologen tot biologen en astronomen. Zulke samenwerkingen leiden niet alleen tot wetenschappelijke doorbraken, maar ook tot vernieuwende software die door andere wetenschappers kan worden ingezet. Naast onderzoek besteden we daarom ook veel aandacht aan het verspreiden van onze kennis en software om zo niet alleen onze projecten, maar ook de wetenschap als geheel vooruit te helpen.

Het eScience Center is een jonge en ambitieuze organisatie met een betrokken team. De start-up achtige sfeer wordt erg gewaardeerd door onze internationale werknemers. Er zijn veel mogelijkheden om kansen te pakken en jezelf te ontwikkelen. Daarnaast bieden wij een goed secundaire arbeidsvoorwaardenpakket aan met onder meer een eindejaarsuitkering, goede pensioenregeling en een ruime verlofregeling.

Wat ga je doen?

Als Human Capital Advisor ben je verantwoordelijk voor Human Capital. Human Capital is een andere benaming voor Human Resources, eentje waarbij de waarde van de werknemer hoog in het vaandel staat. Je werkt in een klein team Operations en adviseert het Management Team en via de Director Operations ook het Directie Team. Je treedt op als sparringspartner tijdens het overleg van het MT wanneer HC zaken op de agenda staan. Je houdt o.a. de administratie bij voor HC (in Loket), stelt (arbeids)overeenkomsten op, en geeft wijzigingen in overeenkomsten door aan de controller voor de externe salarisadministratie. Daarnaast stel je rapportages op en analyseert HC gegevens op basis van Loket ten behoeve van management informatie. Je bent empathisch, tactvol en houdt goed contact met de werknemers om te kunnen inspelen op behoeften en tijdig hierover te signaleren aan de Director Operations. Je ondersteunt het aanname process en in-house trainingsprogramma en ziekte en reintegratieprocessen voor de leidinggevenden. Je vindt het leuk om projecten te trekken en (organisatie-breed) te implementeren. Je werkt accuraat en zorgt dat het HC beleid up-to-date is en de werknemers hiervan op de hoogte zijn.Omdat we vaak werknemers uit het buitenland aantrekken, verzorg je ook de visumaanvragen.

We zoeken een oplossings- en servicegericht persoon. Je denkt mee hoe je de organisatie professioneler kunt maken en hoe je processen efficiënter kunt inrichten.

De uren van de functie zijn over vier dagen op kantoor in de week te verspreiden of op twee dagen uit te voeren. Het is de bedoeling dat je in elk geval de maandag en donderdag (deels) aanwezig bent.

Deze baan is dus goed te combineren met een eigen bedrijf, ander werk, studie of een gezin.

In deze functie werk je nauw samen met de Director Operations. Je hebt veel contact alle collega’s om op de hoogte te blijven van wat er speelt in de organisatie. We zijn als organisatie hard aan het groeien. Daarom kijken we naar wat je kunt en spelen daar op in binnen de ontwikkeling van deze functie.

Wat is jouw profiel?

  • Je hebt een HBO/WO opleiding of equivalente werkervaring;
  • Een goede beheersing van de Engelse en de Nederlandse taal in woord en geschrift;
  • Minimaal 2 jaar ervaring als HR adviseur;
  • Affiniteit met wetenschap;
  • Projectmanagement ervaring;
  • Je kan goed overweg met Microsoft Office;
  • Je hebt een pro-actieve werkhouding en durft op mensen af te stappen;
  • Samenwerken staat bij jou voorop en je bent in staat om met een grote verscheidenheid aan mensen te werken;
  • Ervaring met Loket is een pré;
  • Ervaring in samenwerking met een OR is een pré;
  • Ervaring met het schrijven van notities is een pré.

Wat bieden we jou?

Een aanstelling van vooralsnog één jaar, voor 16 uur per week (Part-time (HR) Human Capital adviseur (m/f) 0.4FTE) Salariëring, afhankelijk van opleiding en ervaring, van minimaal € 2.736,- tot maximaal € 4.339,- bruto per maand (schaal 10 van CAO-Onderzoekinstellingen 2019), bij een 38-urige werkweek. Het Netherlands eScience Center kent gunstige secundaire arbeidsvoorwaarden waaronder een eindejaarsuitkering van 8,3% en 8% vakantietoeslag.

Interesse?

Stuur je motivatie en CV uiterlijk 2 december 2018 per email naarvacancy@esciencecenter.nl.

Wil je meer weten over het Netherlands eScience Center, bezoek dan onze websitewww.eScienceCenter.nl. Voor meer informatie over deze vacature kun je contact opnemen met Aletta Debernardi, Director Operations (a.debernardi@esciencecenter.nl).

Bij het eScience Center hanteren we een actief diversiteitsbeleid. We zijn bewust op zoek naar nieuwe medewerkers met een achtergrond die ondervertegenwoordigd is in de organisatie. We moedigen daarom vrouwen en minderheden aan om te reageren.

Acquisitie naar aanleiding van deze vacature wordt niet op prijs gesteld.

Controller

Controller

Job Opportunity: Controller
Part-time Controller (m/f) 0.4-0.6 FTE
HBO or academic level in business administration and management

The Netherlands eScience Center is looking for a part-time Controller. The Netherlands eScience Center is the Dutch national center of excellence for the development and application of research software to advance academic research. We are convinced that research in every academic discipline can be improved by taking advantage of available digital technology. We are a foundation with an international staff of over 60 employees. We have different income streams and a diverse set of projects.

We take a multidisciplinary approach, combining our deep knowledge of both academic research and software development to help define and solve research challenges. We share our ideas and the tools we develop. Together with a wide range of partner organizations, we advance not just our research projects, but the state of academic research in general.

The position: 

The controller takes care of all financial matters at the eScience Center, while being supported by the financial assistant Operations. The candidate is part of a small Operations team of the eScience Center, with the Director Operations, a HR advisor, an assistant Operations and a position to be filled for procurement, housing and IT. The candidate makes sure that the internal financial processes run smoothly, to ensure that the bookkeeping presents a correct view of the financial position, including the position of the projects in progress. He/she will set up the yearly budget, do the salary administration with our external partner, set up project budgets, administrate our H2020 projects, and make financial management information and overviews available for the Management Team and Directors Team. The controller also makes the financial year report with the assistant Operations in accordance with the external accountant.

We are looking for an enthusiastic team player who will contribute to a medium size, growing and flexible non-profit organization with many stakeholders. The candidate we are looking for likes to improve processes and make them more efficient. The controller does his/her work independently and is the financial adviser of the Director Operations. Furthermore, the controller is the sparring partner of the Directors Team and the management team of the eScience Center for all financialmatters.

We require:

  • Demonstrable experience as a controller, at least 5 years experience in finance;
  • HBO or academic level in business administration and management;
  • Knowledge of tax reporting;
  • Knowledge of the administrative software package Exact Online;
  • Affinity with scientific research and advanced digital technologies;
  • Experience with financial aspects of an independent organization working mostly on projects;
  • Experience with not for profit organisations and the applicable Dutch GAAP;
  • Experience with financial aspects of research funding (e.g. NWO, H2020);
  • Excellent command of Dutch and English (both verbally and written).

Competences:

  • Strong organizing and prioritizing skills;
  • High ethical standards;
  • Motivated, flexible, creative, initiative taking, independent but also a real team player;
  • Strong communication skills;
  • Accuracy and responsibility;
  • Proactive and result oriented.

Working conditions:

We offer a position at the Netherlands eScience Center for initially 1 year within the collective agreement for Dutch Research Institutes (cao-OI). We have excellent regulations regarding holidays and flexibility. The salary for the position from € 3.682,- to € 5.064,- gross per month, depending on education and experience, based on a 38-hour working week working week (salary scale 11 of the cao-OI 2019). Holiday pay amounts to 8% of the gross salary and we also offer a 13th month of salary as an end-of-year payment.

Information:

The eScience Center offers an interesting and challenging working environment with options for personal development. You will work in an international team with an informal but creative and ambitious atmosphere. More information about our organization can be found in the Annual report.

The eScience Center has an active diversity policy and would like to hire persons with a background that is underrepresented at the eScience Center. We therefore encourage women and minorities to apply.
For more information about this opportunity you can contact the Director Operations, dr. Aletta Debernardi, at the Netherlands eScience Center, by emailing a.debernardi@esciencecenter.

Please send your resume and application letter before the 2st of December 2018 to vacancy@esciencecenter.nl.

newsletter

newsletter

Deep Learning & McFly Tutorial

Deep Learning & McFly Tutorial

Want to learn about Deep Learning and apply this to Time Series Data? In this tutorial we will give an introduction to deep learning and using McFly. McFly is software by the Netherlands eScience center which eases the use of deep learning technology for Time Series Classification.

When: October 18, 2018

Time: 9:30am - 12:00pm

Location: The Netherlands eScience Center, Science Park 140, 1012 WX Amsterdam

Cost: Free

Register: Send an email to Atze van der Ploeg: a.vanderploeg@esciencecenter.nl

Big Data & Health

Big Data & Health

This call is closed

Early detection and prevention of cardiovasculair diseases

Interdisciplinary consortia consisting of scientists and public/private partners can apply for funding to study the use of big data for the early detection and prevention of cardiovascular disease. Participation of end users (citizens, patients and/ or (health)professionals) is mandatory.

Purpose

NWO, ZonMw, the Netherlands Heart Foundation, the top sectors of Life Sciences & Health (LSH), ICT and Creative Industry, and the Ministry of Health, Welfare and Sport (VWS) and the Netherlands eScience Center have jointly taken the initiative to develop a public-private research programme in the field of big data and health. The programme promotes collaboration amongst relevant scientific disciplines and with the business community, in consultation with citizens, patients and (care) professionals.

The focus of the Big Data & Health Research Programme is the use of big data for the early detection and prevention of cardiovascular disease, within the frameworks of the Knowledge and Innovation Agendas (K&I Agendas) for ICT, Creative Industry and LSH. The research programme will support the ambitions of the Netherlands Heart Foundation, the Ministry of VWS and the Netherlands eScience Center, as well as those of Commit2Data for the top sectors of ICT, LSH and Creative Industry, as set out in those sectors' 2018-19 Knowledge and Innovation Contracts with NWO.

Who can apply

An applicant must hold a Master’s degree or equivalent qualification and must participate in the project. The main applicant, and a co-applicant who is not actually involved in the Research, must have a doctorate from or be a professor at a Dutch university. The Applicant must have a permanent employment contract with or hold a Tenure Track Appointment at a Knowledge Institute recognised by NWO. If the Applicant is not employed by a Dutch university, (s)he must demonstrate sufficient experience in the relevant field of Research and in overseeing scientific Research.

Applications are submitted on behalf of a consortium by a main applicant. The main applicant has a paid permanent position, or a paid temporary position at a Knowledge Institute recognised by NWO for at least the duration of the application procedure and the research project for which the grant is requested. The main applicant holds final responsibility for the project.

An application can involve multiple co-applicants from Knowledge Institutes that are eligible to receive funding: Knowledge Institute recognised by NWO and TO2-institutes. Care(R&D) institutes based in the Netherlands can, under specific conditions, request funding and participate as cofinancer.

Consortia consist of:

  • at least three research groups - including at least two research groups at Knowledge Institutes recognised by NWO
  • at least one enterprise
  • 2-3 FTE eScience Research Engineers

End users should also participate in the project. End users are citizens, patients and/or (care)professionals.

Knowledge Institutes that are not eligible to receive funding, can be included in a consortium and can contribute to the knowledge development in a project in this way. Their financial contribution is also allowed and encouraged, but this contribution does not count as co-financing.

Enterprises are not eligible to receive funding, but make in cash and/or in kind contributions to the research project. Foreign knowledge institutes or enterprises may participate in the consortium if the results of the research project benefit the Dutch knowledge infrastructure and economy.

What to apply for

The overall requested budget for a research project can be, depending on the type of research (industrial or fundamental), between M€ 1 (50% co-funding) up to a maximum of M€ 2,25 (25% co-funding) and between 2.0 and 3.0 FTE eScience Research Engineer capacity. At least half of the cash resources available to each project is intended for the appointment of temporary scientific personnel to an NWO-accredited research organization.

The following forms of expenditure qualify for grant funding: temporary academic personnel (PhD student/ postdoc); non-academic personnel, such as software developers, lab technicians; TO2 and Care (R&D) co-applicants; participation by citizens and patients; other scientific personell; project-specific expenditure on materials, travel, equipment and other project-related cost items; costs for knowledge utilisation; and costs for international collaboration.

When to apply

The closing date for preregistration is 1 October 2018 14.00 CE(S)T and the closing date for submission of full applications is 8 January 2019, 14.00 CE(S)T.

Criteria

  • Scientific quality (40 per cent)
  • Quality of the consortium (40 per cent)
  • Knowledge utilization (20 per cent)

Procedure

Pre-registration is a mandatory part of the application process. The first step in the appraisal of the pre-registrations involves checking whether the pre-registration meets the aims of the call; whether it satisfies all procedural conditions; and any options for connections that could be made between individual pre-registrations and with relevant consortium partners.

Consultation of end users

After the closing date for pre-registrations, principal applicants will be asked to present their project ideas to a group of citizens, patients and (care) professionals. This group of endusers will be asked to respond to the project ideas and to give advice from the perspective of the end users. The end users' observations will be taken into consideration by the committee that appraises the full applications.

The first step in the appraisal of the full application involves checking whether the application satisfies all procedural conditions and whether it meets the aims of the call. All admissible applications will be sent for appraisal by external advisors. The principal applicant has the opportunity to submit a written response to the anonymized referees' reports.

The Appraisal Committee meets to discuss and rank the applications and submits its recommendations to the Programme Steering Committee. The complementarity and collective coherence of the projects is considered in the prioritization process. Decision-making The Programme Steering Committee makes recommendations to the NWO Domain Board Science regarding the allocation of available resources. The NWO Domain Board Science decides how the available resources will be used.

Download

Submit your proposal

Please submit your proposal using NWO's electronic application system ISAAC:

Submit here

Young eScientist Award 2018

Young eScientist Award 2018

This call is closed

Are you a young and ambitious researcher? Are you a true collaborator, applying or developing research software to solve challenging research questions in your discipline? And do you share your solutions with your colleagues? Then you might be the Young eScientist 2018!

Win 50,000 EUR worth of eScience expertise for your novel research idea!

The Netherlands eScience Center awards €50,000 worth of expertise to a novel eScience idea. Together with the eScience Center’s experts you will formulate your idea into a full project description. Submit your idea before 17 September 2018!

The grand societal challenges of the coming years, such as climate change, increased population size, resource scarcity and urbanization will require innovative scientific and technological interventions. Researchers are more and more required to develop and apply research software to answer their ambitious research questions.

The prospect of developing the skills needed to engage increasingly diverse and complex digital technologies is daunting. The Netherlands eScience Center works together with discipline focused scientists to ensure that state-of-the-art computing and data-science is developed and applied in fields such as the Humanities & Social Sciences, Environment & Sustainability, Life Sciences & eHealth, and Physics & Beyond.

Out of the applications, three nominees will be selected. The nominees will be invited to give a short pitch at the conference dinner of the 14th IEEE eScience Conference on Tuesday 30 October 2018, after which the winner will be announced.

Prize

  • 40K euro in kind provision of eScience Research Engineer expertise to undertake a collaborative project
  • 10K euro personal sponsorship for travel or consumables

Criteria

The prize will be awarded to a young scientist based on a combination of:

  • demonstrated previous success in the development or application of data-driven or compute-intensive research within a scientific domain or multiple domains (1/3) and
  • the quality of a new project idea(1/3)
  • the contribution to scientific research beyond the project (Open Science) (1/3)

Profile of Recipient

  • Currently and for the duration of the project employed by a Dutch university or research institute which is affiliated with NWO or KNAW (eScience Center employees are excluded)
  • Current PhD student or researcher who received their PhD less than 3 years ago (based on day of award presentation)
  • Demonstrated excellence in the development or use of digital technology or data science within a research domain (incl. Environment & Sustainability, Life Sciences & eHealth, Humanities & Social Sciences or Physics & Beyond)

Project Idea

Candidates will submit an idea for a project (not the full proposal) to be judged by the award committee. The successful candidate will work with the eScience Center’s staff to formulate a full description. If data is required for the project idea, the data should be available at the start of the project.

Submitting Proposals

Submission only requires potential applicants to complete the short online procedure before 17 September 2018.

General terms and conditions of the eScience Center’s projects can be found here (Dutch). The eScience Center’s policy towards publishing, licensing and intellectual property can be found here.


Submit here

Header image: Map of scientific collaboration between researchers by Olivier H.Beauchesne

User Support Programme Space Research (GO)

User Support Programme Space Research (GO)

This call is closed

The Netherlands Space Office (NSO), the Netherlands Organisation for Scientific Research (NWO) and the eScience Center are inviting researchers working in the Netherlands aiming to use space infrastructure for the purpose of high quality scientific research to apply for funding.

Purpose

The aim of the User Support Programme Space Research is to provide support to researchers working in the Netherlands during the (preparation for) use of infrastructure in space for the purpose of high quality scientific research. The programme is open to excellent research in the areas of earth observation and planetary research. Please see the call document (download below) for more information and how to apply.

Available budget

The User Support Programme Space Research is financed by the Ministry of Education, Culture and Science. For the period 2017-2019 a budget of 7.2 M€ is available for three calls. For this 2018 call a maximum budget of 2.4 M€ is available. Only applications that qualify as excellent or very good are eligible for funding. This could mean that the available budget for this call is not completely used.

When to apply

Deadline full proposals: 15 November 2018, 14:00 CET

Information event

To allow interested applicants to get acquainted with the aim and conditions of this call for proposals, an information event was organised on 20 June 2018. At this meeting special attention was given to the possibility of applying for additional (in-kind) funding from the Netherlands eScience Center. Further information was given on the eScience Center’s strategy and approach, the role of the eScience Research Engineers, the capabilities of the Dutch National e-Infrastructure, the software technologies implemented and applied by the eScience Center. The presentations can be found below.

Program

13.30 - 14.00 Arrival: coffee/tea
14.00 - 14.40 GO Call for Proposals 2018 (Jennifer Grant) Download Presentation
14.40 - 15.00 eScience Center core technological competences and Research Software Directory (Frank Seinstra) Download Presentation
15.00 - 15.30 Break
15.30 - 15.50 SURF e-Infrastructure (Jeroen Engelberts) Download Presentation
15.50 - 16.20 Experiences with projects by an eScience Research Engineer (Romulo Pereira Gonçalves) Download Presentation
16.20 - 16.45 Remaining questions and issues
16.45 - 17.30 Drinks

Download

Pre-Proposal

Full proposal

Submit your proposal

Please submit your proposal using NWO's electronic application system ISAAC:

Submit here

Contact

Director eScience Program Dr. Frank Seinstra

Frank supervises the development, implementation, and research of innovative eScience solutions in multidisciplinary research projects. He is a strong advocate of applying (and re-using) the latest results of state-of-the-art ICT research in large-scale compute- and data-intensive problems in various scientific research areas.

Profile page

Privacy statement

Privacy statement

As soon as you visit this website (www.esciencecenter.nl and www.research-software.nl) and make use of the facilities offered then you enable the Netherlands eScience Center to collect personal data about you, both directly (via subscribing to our mailing lists or registering for events) and indirectly.

We take the optimum protection of your privacy very seriously and will therefore handle and secure the personal data you supply with the greatest possible care.

We do everything reasonable in our power to effect this.

We will only use the data supplied in accordance with the purposes for which they were collected.

We will not make your date available to third parties. Criminal investigation can be an exception to this rule.

Your data will never be sold to third parties. The most appropriate security technology is used within the eScience Center to ensure the optimum protection of your personal data against unauthorized access. We collect and analyze information related to the use of this website, such as the number of hits and the most requested pages. The aim of collecting this general visitor data is to ensure that the website is set up as good as possible. The party responsible for processing the data is the eScience Center, located at Science Park 140, 1098XG Amsterdam, the Netherlands. This privacy statement does not apply to websites of third parties that are connected to this website via links. We do not accept any responsibility or liability with respect to how these third parties deal with personal data. We therefore advise you to consult the privacy policy of the websites of the third parties concerned.

Software Development Guide

Software Development Guide

We have an online guide to software development at the Netherlands eScience Center. In this guide we provide an overview of the best practices for software development at the Netherlands eScience Center, including a rationale. You can view the guide at guide.esciencecenter.nl

Contact

Technical Lead Efficient Computing Dr. Jason Maassen

Jason is interested in topics related to large scale distributed computing. At the Netherlands eScience Center he works on climate research projects.

Profile page
eScience Research Engineer Bouwe Andela, MSc

Profile page

Accelerating Scientific Discovery Call

Accelerating Scientific Discovery Call

This call is closed

We invite domain scientists working in the discipline areas of

  • Environment & Sustainability
  • Humanities & Social Sciences

to apply for funding.

Purpose

The purpose of this Call for Proposals is to enable domain scientists to address compute-intensive and/or data-driven problems within their research.

The call aims to fund proposals that pursue new scientific domain challenges and that enhance and accelerate the process of scientific discovery within the field of application using eScience technologies. To achieve this, submitted proposals should be characterized by the usage, adaptation, and integration of eScience methods and tools, including software for optimized data handling, Big Data analytics, and efficient computing (the core technological competences of the eScience Center).

Projects awarded in this call typically will be led by PIs from domain science (application disciplines).

Available budget

The total available budget in this call is: k€ 660 in cash funding and 4.0 FTE in kind funding.

With a total of 4 projects to be awarded, a typical project will receive k€ 165 (for a 2-yr postdoc position and additional materials) and 1.0 FTE contribution from one or more eScience Research Engineers employed by the eScience Center and whose time is allocated to the project. On top of this, for each awarded project an additional 0.25 FTE in terms of eScience Research Engineer support will be made available to pursue sustainable and re-usable software solutions.

When to apply

The deadline for the submission of pre-proposals is 17 May 2018, 14:00 CEST.
The deadline for submission of full proposals is 30 August 2018 14:00 CEST.

Information event

To allow interested applicants to get acquainted with the eScience Center’s strategy and approach, the role of the eScience Research Engineers, the capabilities of the Dutch National e-Infrastructure, the software technologies implemented and applied by the eScience Center, and the aim of this call for proposals, an information event was organized at the eScience Center (Amsterdam, Science Park 140) on 10 April 2018. Presentations can be downloaded below.

Preliminary program

14:00 - 14:30 ASDI Call for Proposals and Netherlands eScience Center (download presentation)
14:30 - 15:00 Core technological competences & Research Software Directory (download presentation)

BREAK

15:15 - 15:45 Experiences with projects by 2 eScience Research Engineers (download presentation 1) (download presentation 2)
15:45 - 16:15 SURF e-Infrastructure (download presentation)
16:15 - 16:30 Remaining questions and issues
16:30 Drinks

Download

Pre-Proposal

Full proposal

Submit your proposal

Please submit your proposal using NWO's electronic application system ISAAC:

Submit here


In case you experience problems submitting your proposal, please also send to asdi-call@esciencecenter.nl.

This call is processed by NWO for the Netherlands eScience Center. The eScience Center Board decides in granting and rejection, and all grants will be awarded by the eScience Center.

Contact

Director eScience Program Dr. Frank Seinstra

Frank supervises the development, implementation, and research of innovative eScience solutions in multidisciplinary research projects. He is a strong advocate of applying (and re-using) the latest results of state-of-the-art ICT research in large-scale compute- and data-intensive problems in various scientific research areas.

Profile page

Annual reports

Annual reports

View online: Annual report 2018
View online: Annual report 2017
View online: Annual report 2016
Download PDF: Annual report 2015
Download PDF: Annual report 2014
Download PDF: Annual report 2013
Download PDF: Annual report 2012

Publications

Publications

Jump to
 2018 | 20172016201520142013

2018

Amabili, L., Kosinka, J., Meersbergen, M. A. J. V., Ooijen, P. M. A. V., Roerdink, J. B. T. M., Svetachov, P., & Yu, L. (2018). Improving Provenance Data Interaction for Visual Storytelling in Medical Imaging Data Exploration. Presented at the EuroVis 2018 - 20th EG/VGTC Conference on Visualization, The Eurographics Association. https://doi.org/10.2312/eurovisshort.20181076

Bilgin, A., Tjong Kim Sang, E., Smeenk, K., Hollink, L., van Ossenbruggen, J., Harbers, F., & Broersma, M. (2018). Utilizing a Transparency-driven Environment toward Trusted Automatic Genre Classification: A Case Study in Journalism History. In Proceedings of the 14th IEEE International Conference on eScience (eScience 2018) (p. 11). Amsterdam, The Netherlands: IEEE. Retrieved from https://www.escience2018.com/

Chopard, B., Falcone, J.-L., Kunzli, P., Veen, L., & Hoekstra, A. (2018). Multiscale modeling: recent progress and open questions. Multiscale and Multidisciplinary Modeling, Experiments and Design, 1(1), 57–68. https://doi.org/10.1007/s41939-017-0006-4

D.Carbone, H. Garsden, H.Spreeuw, J.D. Swinbank, A.J. van der Horst, A. Rowlinson, J.W. Broderick, E. Rol, C. Law, R.A.M.J. Wijers. (2018). PySE: Software for extracting sources from radio images. Astronomy and Computing, 23, 92–102. https://doi.org/10.1016/j.ascom.2018.02.003

Dokter, A. M., Desmet, P., Spaaks, J. H., van Hoey, S., Veen, L., Verlinden, L., Shamoun-Baranes, J. (2018). bioRad: biological analysis and visualization of weather radar data. Ecography. https://doi.org/10.1111/ecog.04028

Engler, M. S., Caron, B., Veen, L., Geerke, D. P., Mark, A. E., & Klau, G. W. (2018a). Multiple-Choice Knapsack for Assigning Partial Atomic Charges in Drug-Like Molecules. In 18th International Workshop on Algorithms in Bioinformatics (WABI 2018) (Vol. 113, pp. 16:1-16:13). Dagstuhl, Germany: Schloss Dagstuhl - Leibniz-Zentrum fuer Informatik. https://doi.org/10.4230/LIPIcs.WABI.2018.16

Engler, M. S., Caron, B., Veen, L., Geerke, D. P., Mark, A. E., & Klau, G. W. (2018b). Multiple-Choice Knapsack for Assigning Partial Atomic Charges in Drug-Like Molecules. https://doi.org/10.4230/lipics.wabi.2018.16

Grimaldi, G., Crisp, R. W., ten Brinck, S., Zapata, F., van Ouwendorp, M., Renaud, N., Houtepen, A. J. (2018). Hot-electron transfer in quantum-dot heterojunction films. Nature Communications, 9(1). https://doi.org/10.1038/s41467-018-04623-9

Hamlin, T. A., Svatunek, D., Yu, S., Ridder, L., Infante, I., Visscher, L., & Bickelhaupt, F. M. (2018). Elucidating the Trends in Reactivity of Aza-1,3-Dipolar Cycloadditions: Elucidating the Trends in Reactivity of Aza-1,3-Dipolar Cycloadditions. European Journal of Organic Chemistry. https://doi.org/10.1002/ejoc.201800572

Hanse, J., Jílková, L., Portegies Zwart, S. F., & Pelupessy, F. I. (2018). Capture of exocomets and the erosion of the Oort cloud due to stellar encounters in the Galaxy. Monthly Notices of the Royal Astronomical Society, 473(4), 5432–5445. https://doi.org/10.1093/mnras/stx2721

Hartung, K., Svensson, G., Struthers, H., Deppenmeier, A.-L., & Hazeleger, W. (2018). An EC-Earth coupled atmosphere-ocean single-column model (AOSCM) for studying coupled marine and polar processes. Geoscientific Model Development Discussions, 1–35. https://doi.org/10.5194/gmd-2018-66

Heydarian, H., Schueder, F., Strauss, M. T., van Werkhoven, B., Fazel, M., Lidke, K. A., Rieger, B. (2018). Template-free 2D particle fusion in localization microscopy. Nature Methods. https://doi.org/10.1038/s41592-018-0136-6

Hogervorst,Susan, Brugman, Hennie, Buitinck, Lars, van Erp, Marieke, Klijn, Edwin, Kouw, Wouter, Willemsen, Jeroen. (2018). THE EVENT-DETECTION GAP Manual vs. automatic event detection in historical research. Presented at the DH Benelux 2018, Amsterdam, The Netherlands.

Kooistra, A. J., Vass, M., McGuire, R., Leurs, R., de Esch, I. J., Vriend, G., de Graaf, C. (2018). 3D-e-Chem: Structural Cheminformatics Workflows for Computer-Aided Drug Discovery. ChemMedChem. https://doi.org/10.1002/cmdc.201700754

Kuzniar, A., Maassen, J., Verhoeven, S., Santuari, L., Shneider, C., Kloosterman, W., & Ridder, J. de. (2018). A portable and scalable workflow for detecting structural variants in whole-genome sequencing data. IEEE eScience 2018. Retrieved from https://www.escience2018.com/page/471839

Kuzniar, A., Maassen, J., Verhoeven, S., Shneider, C., Kloosterman, W., & de Ridder, J. (2018). sv-callers: a portable workflow for detecting structural variants in WGS data. Presented at the European Conference on Computational Biology, Athens, Greece. Retrieved from http://eccb18.org/

Mejía, L., Renaud, N., & Franco, I. (2018). Signatures of Conformational Dynamics and Electrode-Molecule Interactions in the Conductance Profile During Pulling of Single-Molecule Junctions. The Journal of Physical Chemistry Letters, 9(4), 745–750. https://doi.org/10.1021/acs.jpclett.7b03323

Mikhailov, K., & Sclocco, A. (2018). The Apertif Monitor for Bursts Encountered in Real-time (AMBER) auto-tuning optimization with genetic algorithms. Astronomy and Computing, 25, 139–148. https://doi.org/10.1016/j.ascom.2018.09.007

Möller, J., Trilling, D., Helberger, N., & van Es, B. (2018). Do not blame it on the algorithm: an empirical assessment of multiple recommender systems and their impact on content diversity. Information, Communication & Society, 21(7), 959–977. https://doi.org/10.1080/1369118X.2018.1444076

Neyrinck, M. C., Hidding, J., Konstantatou, M., & van de Weygaert, R. (2018). The cosmic spiderweb: equivalence of cosmic, architectural and origami tessellations. Royal Society Open Science, 5(4), 171582. https://doi.org/10.1098/rsos.171582

Nikishova, A., Veen, L., Zun, P., & Hoekstra, A. G. (2018). Uncertainty Quantification of a Multiscale Model for In-Stent Restenosis. Cardiovascular Engineering and Technology. https://doi.org/10.1007/s13239-018-00372-4

Nourian, P., Martinez-Ortiz, C., & Ohori, K. A. (2018). Essential Means for Urban Computing: Specification of Web-Based Computing Platforms for Urban Planning, a Hitchhiker’s Guide. Urban Planning, 3(1), 47. https://doi.org/10.17645/up.v3i1.1299

Okkersen, K., Jimenez-Moreno, C., Wenninger, S., Daidj, F., Glennon, J., Cumming, S., Dittrich, J. (2018b). Cognitive behavioural therapy with optional graded exercise therapy in patients with severe fatigue with myotonic dystrophy type 1: a multicentre, single-blind, randomised trial. The Lancet Neurology, 17(8), 671–680. https://doi.org/10.1016/S1474-4422(18)30203-5

Ordelman, R., Martinez Ortiz, C., Melgar Estrada, L., Koolen, M., Blom, J., Melder, W., Inel, O. (2018). Challenges In Enabling Mixed Media Scholarly Research With Multi-Media Data In A Sustainable Infrastructure. Presented at the DH, Mexico City.

Ordelman, R., Melgar, L., Martinez-Ortiz, C., & Noordegraaf, J. (2018). Media Suite: Unlocking Archives for Mixed Media Scholarly Research. Presented at the CLARIN, Pisa, Italy.

Pelupessy, I., Van Werkhoven, B., Dijkstra, H., van Elteren, A., & Portegies Zwart, S. (2018, April). Development of the Oceanographic Multipurpose Software Environment. Conference Poster presented at the EGU 2018, Vienna. Retrieved from https://meetingorganizer.copernicus.org/EGU2018/EGU2018-19113.pdf

Portegies Zwart, S., Torres, S., Pelupessy, I., Bédorf, J., & Cai, M. X. (2018). The origin of interstellar asteroidal objects like 1I/2017 U1 ‘Oumuamua. Monthly Notices of the Royal Astronomical Society: Letters, 479(1), L17–L22. https://doi.org/10.1093/mnrasl/sly088

Ranguelova, E., Puwels, E., & Berkhout, J. (2018). Evaluating Layer-wise Relevance Propagation Explainability Maps for Artificial Neural Networks. Presented at the IEEE eScience, Amsterdam, The Netherlands.

Rasmijn L. M., van der Schrier G., Bintanja R., Barmeijer J., Sterl A., & Hazeleger W. (2018). Future equivalent of 2010 Russian heatwave intensified by weakening soil moisture constraints. Nature Climate Change, 8(5), 381–385. https://doi.org/10.1038/s41558-018-0114-0

Saladino, M. I., Pols, O. R., van der Helm, E., Pelupessy, I., & Zwart, S. P. (2018). Gone with the wind: the impact of wind mass transfer on the orbital evolution of AGB binary systems. Astronomy & Astrophysics. https://doi.org/10.1051/0004-6361/201832967

Sauer, S., Hagedoorn, B., Melgar, L., de Boer, V., Aroyo, L., & Martinez Ortiz, C. (2018). Linking data and disciplines: Exploring narratives through computational tools and interdisciplinary collaboration. Presented at the DHBenelux 2018.

Serna-Chavez, H., Kissling, W. D., Veen, L. E., Swenson, N. G., & van Bodegom, P. M. (2018). Spatial scale dependence of factors driving climate regulation services in the Americas. Global Ecology and Biogeography, 27(7), 828–838. https://doi.org/10.1111/geb.12743

Singh, G., Kuzniar, A., van Mulligen, E. M., Gavai, A., Bachem, C., Visser, R., & Finkers, R. (2018). QTLTableMiner++: semantic mining of QTL tables in scientific articles. BMC Bioinformatics, 19(1), 183. https://doi.org/10.1186/s12859-018-2165-7

Spaaks, J. H., Klaver, T., Verhoeven, S., Maassen, J., Bakker, T., van der Ploeg, A., van Nieuwpoort, R. V. (2018). Painting The Picture Of Software Impact With The Research Software Directory. Presented at the 14th eScience IEEE International Conference, Amsterdam, The Netherlands. https://doi.org/10.5281/zenodo.1412293

Tjong Kim Sang, E., Esteve del Valle, M., Kruitbosch, H., & Broersma, M. (2018). Active Learning for Classifying Political Tweets. International Science and General Applications, 1(March), 60–67.

van den Berk, J., Drijfhout, S. S., & Hazeleger, W. (2018). Atlantic salinity budget in response to Northern and Southern Hemisphere ice sheet discharge. Climate Dynamics. https://doi.org/10.1007/s00382-018-4444-4

van der Schrier, G., Rasmijn, L. M., Barkmeijer, J., Sterl, A., & Hazeleger, W. (2018). The 2010 Pakistan floods in a future climate. Climatic Change, 148(1–2), 205–218. https://doi.org/10.1007/s10584-018-2173-7

van Hees, Vincent T, Sabia, S., Jones, S. E., Wood, A. R., Anderson, K. N., Kivimaki, M., Weedon, M. N. (2018). Estimating sleep parameters using an accelerometer without sleep diary. https://doi.org/10.1101/257972

van Hees, Vincent T., van Diessen, E., Sinke, M. R. T., Buitenhuis, J. W., van der Maas, F., Ridder, L., & Otte, W. M. (2018). Reliable and automatic epilepsy classification with affordable, consumer-grade electroencephalography in rural sub-Saharan Africa. https://doi.org/10.1101/324954

van Hees, Vincent Theodoor, Sabia, S., Jones, S. E., Wood, A. R., Anderson, K. N., Kivimäki, M., Weedon, M. N. (2018). Estimating sleep parameters using an accelerometer without sleep diary. Scientific Reports, 8(1). https://doi.org/10.1038/s41598-018-31266-z

van Nieuwpoort, R., van Leeuwen, J., Sclocco, A., Spreeuw, H., & Williams, C. (2018). Real-Time RFI Mitigation for LOFAR, Apertif and SKA. https://doi.org/10.23919/URSI-AT-RASC.2018.8471446

van Werkhoven, B., Hijma, P., Jacobs, C. J. H., Maassen, J., Geradts, Z. J. M. H., & Bal, H. E. (2018). A Jungle Computing approach to common image source identification in large collections of images. Digital Investigation. https://doi.org/10.1016/j.diin.2018.09.002

2017

Afshar, S., Seymour, K., Kelly, S. B., Woodcock, S., van Hees, V. T., & Mathers, J. C. (2017). Changes in physical activity after bariatric surgery: using objective and self-reported measures. Surgery for Obesity and Related Diseases, 13(3), 474–483. https://doi.org/10.1016/j.soard.2016.09.012

Allen, A., Aragon, C., Becker, C., Carver, J., Chis, A., Combemale, B., Herbstritt, M. (2017). Engineering Academic Software (Dagstuhl Perspectives Workshop 16252) (p. ). https://doi.org/10.4230/dagman.6.1.1

Andry, O., Bintanja, R., & Hazeleger, W. (2017). Time-Dependent Variations in the Arctic’s Surface Albedo Feedback and the Link to Seasonality in Sea Ice. Journal of Climate, 30(1), 393–410. https://doi.org/10.1175/JCLI-D-15-0849.1

Broekema, P. C., Twelker, D. R., Romão, D. C., Grosso, P., van Nieuwpoort, R. V., & Bal, H. E. (2017). Software-defined networks in large-scale radio telescopes. In Proceedings of the Computing Frontiers Conference (pp. 263–266). Siena, Italy: ACM. https://doi.org/10.1145/3075564.3075594

Brunnabend, S.-E., Dijkstra, H. A., Kliphuis, M. A., Bal, H. E., Seinstra, F., van Werkhoven, B., van Meersbergen, M. (2017). Changes in extreme regional sea level under global warming. Ocean Science, 13(1), 47–60. https://doi.org/10.5194/os-13-47-2017

CLTL and Computer Science, Vrije Universiteit, Amsterdam, The Netherlands, Fokkens, A., Vossen, P., CLTL and Computer Science, Vrije Universiteit, Amsterdam, The Netherlands, Rospocher, M., Fondazione Bruno Kessler, Trento, Italy, Netherlands eScience Center, Amsterdam, The Netherlands. (2017). GRaSP: Grounded Representation and Source Perspective. In Proceedings of the Workshop Knowledge Resources for the Socio-Economic Sciences and Humanities (pp. 19–25). Incoma Ltd. Shoumen, Bulgaria. https://doi.org/10.26615/978-954-452-040-3_003

de Boer, V., Melgar, L., Inel, O., Ortiz, C. M., Aroyo, L., & Oomen, J. (2017). Enriching Media Collections for Event-Based Exploration. In E. Garoufallou, S. Virkus, R. Siatri, & D. Koutsomiha (Eds.), Metadata and Semantic Research (Vol. 755, pp. 189–201). Cham: Springer International Publishing. https://doi.org/10.1007/978-3-319-70863-8_18

Doherty, A., Jackson, D., Hammerla, N., Plötz, T., Olivier, P., Granat, M. H., Wareham, N. J. (2017). Large Scale Population Assessment of Physical Activity Using Wrist Worn Accelerometers: The UK Biobank Study. PLOS ONE, 12(2), e0169649. https://doi.org/10.1371/journal.pone.0169649

Georgievska, S., Bakhshi, R., Gavai, A., Sclocco, A., & van Werkhoven, B. (2017). Clustering image noise patterns by embedding and visualization for common source camera detection. Digital Investigation. https://doi.org/10.1016/j.diin.2017.08.005

Heusinkveld, B. G., Sterenborg, G., Steeneveld, G. J., Attema, J. J., Ronda, R. J., & Holtslag, A. A. M. (2017). Smartphone App brings human thermal comfort forecast in your hands. Bulletin of the American Meteorological Society, 98(12), 2533–2541. https://doi.org/10.1175/BAMS-D-16-0082.1

Hut, R. W., van de Giesen, N. C., & Drost, N. (2017). Comment on “Most computational hydrology is not reproducible, so is it really science?” by Christopher Hutton et al.: Let hydrologists learn the latest computer science by working with Research Software Engineers (RSEs) and not reinvent the waterwheel our: DO NOT REINVENT THE WATERWHEEL. Water Resources Research, 53(5), 4524–4526. https://doi.org/10.1002/2017WR020665

Janssen Duijghuijsen, L. M., Keijer, J., Mensink, M., Lenaerts, K., Ridder, L., Nierkens, S., van Norren, K. (2017). Adaptation of exercise-induced stress in well-trained healthy young men: Adaptation of exercise-induced stress. Experimental Physiology, 102(1), 86–99. https://doi.org/10.1113/EP086025

Jiménez, R. C., Kuzak, M., Alhamdoosh, M., Barker, M., Batut, B., Borg, M., Crouch, S. (2017). Four simple recommendations to encourage best practices in research software. F1000Research, 6, 876. https://doi.org/10.12688/f1000research.11407.1

Knuth, A. G., Silva, I. C. M., van Hees, V. T., Cordeira, K., Matijasevich, A., Barros, A. J. D., Hallal, P. C. (2017). Objectively-measured physical activity in children is influenced by social indicators rather than biological lifecourse factors: Evidence from a Brazilian cohort. Preventive Medicine, 97, 40–44. https://doi.org/10.1016/j.ypmed.2016.12.051

Kuzniar, A., Laffeber, C., Eppink, B., Bezstarosti, K., Dekkers, D., Woelders, H., Kanaar, R. (2017). Semi-quantitative proteomics of mammalian cells upon short-term exposure to non-ionizing electromagnetic fields. PLOS ONE, 12(2), e0170762. https://doi.org/10.1371/journal.pone.0170762

Leemans, I., van der Zwaan, J., Maks, I., Kuijpers, E., & Steenbergh, K. (2017). Mining Embodied Emotions: a Comparative Analysis of Sentiment and Emotion in Dutch Texts, 1600-1800. Digital Humanities Quarterly, 11(4). Retrieved from http://www.digitalhumanities.org/dhq/vol/11/4/000343/000343.html

Levin, L., Armour, W., Baffa, C., Barr, E., Cooper, S., Eatough, R., the SKA TDT team. (2017). Pulsar Searches with the SKA. In Proceedings of the International Astronomical Union (Vol. 13, pp. 171–174). https://doi.org/10.1017/S1743921317009528

Maarten van Meersbergen, Janneke van der Zwaan, Willem van Hage, Piek Vossen, Antske Fokkens, Inger Leemans, & Isa Maks. (2017). Storyteller: Visual Analytics of Perspectives on Rich Text Interpretations. In Proceedings of nlp meets journalism, Copenhagen, Denmark, 2017. Copenhagen. Retrieved from http://www.aclweb.org/anthology/W17-4207

Maassen, J., van Werkhoven, B., van Meersbergen, M., Bal, H. E., Kliphuis, M., Brunnabend, S. E., Seinstra, F. J. (2017). On the complexities of utilizing large-scale lightpath-connected distributed cyberinfrastructure: On the complexities of utilizing large-scale lightpath-connected distributed cyberinfrastructure. Concurrency and Computation: Practice and Experience, 29(2), e3853. https://doi.org/10.1002/cpe.3853

Martinez Ortiz, C., Ordelman, R., Koolen, M., Noordegraaf, J., Melgar, L., Aroyo, L., Poell, T. (2017). From Tools to “Recipes”: Building a Media Suite within the Dutch Digital Humanities Infrastructure CLARIAH. Presented at the DH Benelux. Retrieved from https://dhbenelux2017.eu/programme/sessions/wednessday-afternoon/

Martinez Rubi, O., Nex, F., Pierrot-Deseilligny, M., & Rupnik, E. (2017). Improving FOSS photogrammetric workflows for processing large image datasets. Open Geospatial Data, Software and Standards, 2(1), 12. https://doi.org/10.1186/s40965-017-0024-5

McGuire, R., Verhoeven, S., Vass, M., Vriend, G., de Esch, I. J. P., Lusher, S. J., de Graaf, C. (2017). 3D-e-Chem-VM: Structural Cheminformatics Research Infrastructure in a Freely Available Virtual Machine. Journal of Chemical Information and Modeling, 57(2), 115–121. https://doi.org/10.1021/acs.jcim.6b00686

Menai, M., van Hees, V. T., Elbaz, A., Kivimaki, M., Singh-Manoux, A., & Sabia, S. (2017). Accelerometer assessed moderate-to-vigorous physical activity and successful ageing: results from the Whitehall II study. Scientific Reports, 8, 45772. https://doi.org/10.1038/srep45772

Oostrum, L. C., van Leeuwen, J., Attema, J., van Cappellen, W., Connor, L., Hut, B., Verheijen, M. A. W. (2017). Detection of a bright burst from FRB 121102 with Apertif at the Westerbork Synthesis Radio Telescope. The Astronomer’s Telegram, 10693.

Ouwersloot, H. G., Moene, A. F., Attema, J. J., & de Arellano, J. V.-G. (2017). Large-Eddy Simulation Comparison of Neutral Flow Over a Canopy: Sensitivities to Physical and Numerical Conditions, and Similarity to Other Representations. Boundary-Layer Meteorology, 162(1), 71–89. https://doi.org/10.1007/s10546-016-0182-5

Pelupessy, I., van Werkhoven, B., van Elteren, A., Viebahn, J., Candy, A., Portegies Zwart, S., & Dijkstra, H. (2017). The Oceanographic Multipurpose Software Environment (OMUSE v1.0). Geoscientific Model Development, 10(8), 3167–3187. https://doi.org/10.5194/gmd-10-3167-2017

Ranguelova, E. (2017). Local Shape and Moment Invariant Descriptor for Structured Images. In Proceedings of the 19th IMVIP (pp. 245–248). Maynooth, Ireland.

Ranguelova, E., Kuffer, M., Pfeffer, K., Roy, D., & Lees, M. (2017). Image Based Classification of Slums, Built-up and Non-built-up Areas in Kalyan, India (p. 58). Presented at the 37th EARSeL Symposium: Smart Future with Remote Sensing, Prague, Czech Republic. Retrieved from http://symposium.earsel.org/37th-symposium-Prague/wp-content/uploads/2016/06/2017_EARSeL_abstract_book.pdf

Remenska, D., Tunnell, C., Aalbers, J., Verhoeven, S., Maassen, J., & Templon, J. (2017). Giving pandas ROOT to chew on: experiences with the XENON1T Dark Matter experiment. Journal of Physics: Conference Series, 898, 042003. https://doi.org/10.1088/1742-6596/898/4/042003

Ridder, L. (2017). MAGMa-Based Mass Spectrum Annotation in CASMI 2014. Current Metabolomics, 5(1), 18–24. https://doi.org/10.2174/2213235X04666160620100844

Ronda, R. J., Steeneveld, G. J., Heusinkveld, B. G., Attema, J. J., & Holtslag, A. A. M. (2017). Urban fine-scale forecasting reveals weather conditions with unprecedented detail. Bulletin of the American Meteorological Society. https://doi.org/10.1175/BAMS-D-16-0297.1

Sutanudjaja, E. H., van Beek, R., Wanders, N., Wada, Y., Bosmans, J. H. C., Drost, N., Bierkens, M. F. P. (2017). PCR-GLOBWB 2: a 5 arc-minute global hydrological and water resources model. Geoscientific Model Development Discussions, 1–41. https://doi.org/10.5194/gmd-2017-288

Tjong Kim Sang, E., Esteve del Valle, M., Kruitbosch, H., & Broersma, M. (2017). Active Learning for Classifying Political Tweets. In International Conference on Natural Language, Signal and Speech Processing (pp. 110–114). Casablanca, Morocco: ISGA: Institut Superieur d’inGenieire & des Affaires. Retrieved from https://ifarm.nl/erikt/papers/2017-icnlssp.pdf

Tjong Kim Sang, E., Kruitbosch, H., Broersma, M., & Esteve del Valle, M. (2017). Determining the function of political tweets. In Proceedings of the 13th IEEE International Conference on eScience (eScience 2017) (pp. 438–439). Auckland, New Zealand: IEEE. https://doi.org/10.1109/eScience.2017.60

van den Oord, G., & Bakhshi, R. (2017). Parallel Post-Processing of the Earth Climate Model Output. Procedia Computer Science, 108, 2473–2477. https://doi.org/10.1016/j.procs.2017.05.146

van der Linden, E. C., Bintanja, R., & Hazeleger, W. (2017). Arctic decadal variability in a warming world: ARCTIC DECADAL VARIABILITY. Journal of Geophysical Research: Atmospheres, 122(11), 5677–5696. https://doi.org/10.1002/2016JD026058

van Hees, V. T. (2017). The importance of nuance in statements about methods for human energy expenditure estimation that use motion sensors. European Journal of Clinical Nutrition, 71(9), 1136–1137. https://doi.org/10.1038/ejcn.2017.65

van Hees, V. T., Sabia, S., Jones, S. E., Wood, A. R., Anderson, K., Trenell, M. I., Singh-Manoux, A. (2017). Assessment of sleep parameters from raw accelerometry data. In Sleep Medicine (Vol. 40, p. e333). https://doi.org/10.1016/j.sleep.2017.11.980

van Kuppevelt, D., & van Dijck, G. (2017). Answering Legal Research Questions About Dutch Case Law with Network Analysis and Visualization. In Frontiers in Artificial Intelligence and Applications (pp. 95–100). https://doi.org/10.3233/978-1-61499-838-9-95

van Oosterom, P., Martinez-Rubi, O., Tijssen, T., & Gonçalves, R. (2017). Realistic Benchmarks for Point Cloud Data Management Systems. In A. Abdul-Rahman (Ed.), Advances in 3D Geoinformation (pp. 1–30). Cham: Springer International Publishing. https://doi.org/10.1007/978-3-319-25691-7_1

Varbanescu, A. L., van Nieuwpoort, R. V., Hijma, P., Bal, H. E., Badia, R. M., & Martorell, X. (2017). Programming Models for Multicore and Many-Core Computing Systems. In S. Pllana & F. Xhafa (Eds.), Programming multi-core and many-core computing systems (pp. 29–58). John Wiley & Sons, Inc. https://doi.org/10.1002/9781119332015.ch2

Vu, D., Georgievska, S., Szoke, S., Kuzniar, A., & Robert, V. (2017). fMLC: Fast Multi-Level Clustering and Visualization of Large Molecular Datasets. Bioinformatics, 34(9), 1577–1579. https://doi.org/10.1093/bioinformatics/btx810

Wilkinson, M. D., Verborgh, R., Bonino da Silva Santos, L. O., Clark, T., Swertz, M. A., Kelpin, F. D. L., Dumontier, M. (2017). Interoperability and FAIRness through a novel combination of Web technologies. PeerJ Computer Science, 3, e110. https://doi.org/10.7717/peerj-cs.110

Yatawatta, S., Diblen, F., Spreeuw, H., & Koopmans, L. V. E. (2017). Data Multiplexing in Radio Interferometric Calibration. Monthly Notices of the Royal Astronomical Society, 475(1), 708–715. https://doi.org/10.1093/mnras/stx3130

Yatawatta, Sarod, Diblen, Faruk, & Spreeuw, Hanno. (2017). Adaptive ADMM in Distributed Radio Interferometric Calibration. In 2017 IEEE 7th International Workshop on Computational Advances in Multi-Sensor Adaptive Processing (CAMSAP) (pp. 1–5). IEEE. https://doi.org/10.1109/CAMSAP.2017.8313135

2016

Bal, H., Epema, D., de Laat, C., van Nieuwpoort, R., Romein, J., Seinstra, F., Wijshoff, H. (2016). A Medium-Scale Distributed System for Computer Science Research: Infrastructure for the Long Term. Computer, 49(5), 54–63. https://doi.org/10.1109/MC.2016.127

Bos, P., Wijfjes, H., Voerman, G., & Piscaer, M. (2016). Quantifying ‘Pillarization’: Extracting Political History from Large Databases of Digitized Media Collections. In M. Düring, A. Jatowt, J. Preiser-Kappeller, & A. van den Bosch (Eds.), Proceedings of the 3rd HistoInformatics Workshop(Vol. 1632). Krakow, Poland: CEUR Workshop Proceedings. https://doi.org/10.5281/zenodo.1189196

Ceolin, D., Groth, P., Maccatrozzo, V., Fokkink, W., Hage, W. R. V., & Nottamkandath, A. (2016). Combining User Reputation and Provenance Analysis for Trust Assessment. Journal of Data and Information Quality, 7(1–2), 1–28. https://doi.org/10.1145/2818382

Charman, S. J., van Hees, V. T., Quinn, L., Dunford, J. R., Bawamia, B., Veerasamy, M., Kunadian, V. (2016). The effect of percutaneous coronary intervention on habitual physical activity in older patients. BMC Cardiovascular Disorders, 16(1). https://doi.org/10.1186/s12872-016-0428-7

Chuwah, C., van Noije, T., van Vuuren, D. P., Le Sager, P., & Hazeleger, W. (2016). Global and regional climate impacts of future aerosol mitigation in an RCP6.0-like scenario in EC-Earth. Climatic Change, 134(1–2), 1–14. https://doi.org/10.1007/s10584-015-1525-9

da Silva Santos, L. O., Wilkinson, M. D., Kuzniar, A., Kaliyaperumal, R., Thompson, M., Dumontier, M., & Burger, K. (2016). FAIR Data Points Supporting Big Data Interoperability. In Enterprise Interoperability in the Digitized and Networked Factory of the Future. Retrieved from http://www.iste.co.uk/book.php?id=1073

de Kleijn, M., de Hond, R., & Martinez-Rubi, O. (2016). A 3D spatial data infrastructure for Mapping the Via Appia. Digital Applications in Archaeology and Cultural Heritage, 3(2), 23–32. https://doi.org/10.1016/j.daach.2016.03.001

Deppenmeier, A.-L., Haarsma, R. J., & Hazeleger, W. (2016). The Bjerknes feedback in the tropical Atlantic in CMIP5 models. Climate Dynamics, 47(7–8), 2691–2707. https://doi.org/10.1007/s00382-016-2992-z

Drost, N., Hut, R., van Meersbergen, M., Sutanudjaja, E., Bierkens, M., & van de Giesen, N. (2016). The eWaterCycle project. In 2016 IEEE 12th International Conference on e-Science (e-Science) (pp. 430–430). Baltimore, MD, USA: IEEE. https://doi.org/10.1109/eScience.2016.7870930

Fairclough, S. J., Noonan, R., Rowlands, A. V., Van Hees, V., Knowles, Z., & Boddy, L. M. (2016). Wear Compliance and Activity in Children Wearing Wrist- and Hip-Mounted Accelerometers: Medicine & Science in Sports & Exercise, 48(2), 245–253. https://doi.org/10.1249/MSS.0000000000000771

Goncalves, R., van Tilburg, T., Kyzirakos, K., Alvanaki, F., Koutsourakis, P., van Werkhoven, B., & van Hage, W. (2016). A spatial column-store to triangulate the Netherlands on the fly. (pp. 1–4). ACM Press. https://doi.org/10.1145/2996913.2997005

Goncalves, R., Zlatanova, S., Kyzirakos, K., Nourian, P., Alvanaki, F., & van Hage, W. (2016). A columnar architecture for modern risk management systems (pp. 424–429). IEEE. https://doi.org/10.1109/eScience.2016.7870929

Haarsma, R. J., Roberts, M. J., Vidale, P. L., Senior, C. A., Bellucci, A., Bao, Q., von Storch, J.-S. (2016). High Resolution Model Intercomparison Project (HighResMIP v1.0) for CMIP6. Geoscientific Model Development, 9(11), 4185–4208. https://doi.org/10.5194/gmd-9-4185-2016

Hildebrand, M., Hansen, B. H., van Hees, V. T., & Ekelund, U. (2016). Evaluation of raw acceleration sedentary thresholds in children and adults. Scandinavian Journal of Medicine & Science in Sports, 27(12), 1814–1823. https://doi.org/10.1111/sms.12795

Hut, R., Drost, N., van Meersbergen, M., Sutanudjaja, E., Bierkens, M., & van de Giesen, N. (2016). eWaterCycle: a hyper-resolution global hydrological model for river discharge forecasts made from open source pre-existing components. Geoscientific Model Development Discussions, 1–19. https://doi.org/10.5194/gmd-2016-225

Krikken, F., Schmeits, M., Vlot, W., Guemas, V., & Hazeleger, W. (2016). Skill improvement of dynamical seasonal Arctic sea ice forecasts: Improved Arctic Sea Ice Forecasts. Geophysical Research Letters, 43(10), 5124–5132. https://doi.org/10.1002/2016GL068462

Madougou, S., Varbanescu, A., de Laat, C., & van Nieuwpoort, R. (2016). The landscape of GPGPU performance modeling tools. Parallel Computing, 56, 18–33. https://doi.org/10.1016/j.parco.2016.04.002

Madougou, S., Varbanescu, A. L., Laat, C. D., & Nieuwpoort, R. V. (2016). A Tool for Bottleneck Analysis and Performance Prediction for GPU-Accelerated Applications. In 2016 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW) (pp. 641–652). Chicago, IL, USA: IEEE. https://doi.org/10.1109/IPDPSW.2016.198

Martinez-Ortiz, Carlos, Kenter, Tom, Wevers, Melvin, Huijnen, Pim, Verheul, Jaap, & van Eijnatten, Joris. (2016). Design and implementation of ShiCo: Visualising shifting concepts over time. In Proceedings of the 3rd HistoInformatics Workshop on Computational History (Vol. 1632, pp. 11–19). Krakow, Poland: ceur. Retrieved from http://ceur-ws.org/Vol-1632/

Martinez-Rubi, O., de Kleijn, M., Verhoeven, S., Drost, N., Attema, J., van Meersbergen, M., Svetachov, P. (2016). Using modular 3D digital earth applications based on point clouds for the study of complex sites. International Journal of Digital Earth, 9(12), 1135–1152. https://doi.org/10.1080/17538947.2016.1205673

Meijer, C., Verhoeven, S., Ranguelova, E., Camphuysen, K., Shamoun-Baranes, J., & Bouten, W. (2016). Visually Supported Annotation of Bird Tracking data and Subsequent Classification of Behaviour using Machine Learning. Presented at the Visually-supported Computational Movement Analysis 2016, Helsinki. Retrieved from http://viz.icaci.org/vcma2016/programme/

Mizeranschi, A., Groen, D., Borgdorff, J., Hoekstra, A. G., Chopard, B., & Dubitzky, W. (2016). Anatomy and Physiology of Multiscale Modeling and Simulation in Systems Medicine. In U. Schmitz & O. Wolkenhauer (Eds.), Systems Medicine (Vol. 1386, pp. 375–404). New York, NY: Springer New York. https://doi.org/10.1007/978-1-4939-3283-2_17

Nourian, P., Gonçalves, R., Zlatanova, S., Ohori, K. A., & Vu Vo, A. (2016). Voxelization algorithms for geospatial applications. MethodsX, 3, 69–86. https://doi.org/10.1016/j.mex.2016.01.001

Otten, M., Vlothuizen, W., Spreeuw, H., & Varbanescu, A. (2016). Real-time processing of multi-channel SAR data with GPUs. In 2016 European Radar Conference (EuRAD). IEEE. Retrieved from http://ieeexplore.ieee.org/document/7811648/

Pelupessy, I., van Werkhoven, B., van Elteren, A., Viebahn, J., Candy, A., Zwart, S. P., & Dijkstra, H. (2016). OMUSE: Oceanographic multipurpose software environment (pp. 399–399). IEEE. https://doi.org/10.1109/eScience.2016.7870925

Ranguelova, E. (2016). A Salient Region Detector for structured images. In 2016 IEEE/ACS 13th International Conference of Computer Systems and Applications (AICCSA) (pp. 1–8). https://doi.org/10.1109/AICCSA.2016.7945643

Rasmijn, L. M., van der Schrier, G., Barkmeijer, J., Sterl, A., & Hazeleger, W. (2016). Simulating the extreme 2013/2014 winter in a future climate: SIMULATING THE EXTREME 2013/2014 WINTER. Journal of Geophysical Research: Atmospheres, 121(10), 5680–5698. https://doi.org/10.1002/2015JD024492

Sclocco, A., van Leeuwen, J., Bal, H. E., & van Nieuwpoort, R. V. (2016). Real-time dedispersion for fast radio transient surveys, using auto tuning on many-core accelerators. Astronomy and Computing, 14, 1–7. https://doi.org/10.1016/j.ascom.2016.01.001

Shamoun-Baranes, J., Bouten, W., van Loon, E. E., Meijer, C., & Camphuysen, C. J. (2016). Flap or soar? How a flight generalist responds to its aerial environment. Philosophical Transactions of the Royal Society B: Biological Sciences, 371(1704), 20150395. https://doi.org/10.1098/rstb.2015.0395

Tian, Y., Özcan, F., Zou, T., Goncalves, R., & Pirahesh, H. (2016). Building a Hybrid Warehouse: Efficient Joins between Data Stored in HDFS and Enterprise Warehouse. ACM Transactions on Database Systems, 41(4), 1–38. https://doi.org/10.1145/2972950

van der Molen, B., Buitinck, L. J., & Pieters, T. (2016). The leveled approach. Using and evaluating text mining tools AVResearcherXL and Texcavator for historical research on public perceptions of drugs. Presented at the 2nd IFIP International Workshop on Computational History and Data-driven Humanities on 25 May 2016, Trinity College Dublin, Ireland.

van der Zwaan, J. M., van Meersbergen, M., Fokkens, A., ter Braake, S., Leemans, I., Kuijpers, E., Maks, I. (2016). Storyteller: Visualizing Perspectives in Digital Humanities Projects. In B. Bozic, G. Mendel-Gleason, C. Debruyne, & D. O’Sullivan (Eds.), Computational History and Data-Driven Humanities (Vol. 482, pp. 78–90). Cham: Springer International Publishing. https://doi.org/10.1007/978-3-319-46224-0_8

van der Zwaan, J., Marx, M., & Kamps, J. (2016). Validating Cross-Perspective Topic Modeling for Extracting Political Parties’ Positions from Parliamentary Proceedings. Frontiers in Artificial Intelligence and Applications, 285, 28–36. https://doi.org/10.3233/978-1-61499-672-9-28

van Esse, G. W., ten Hove, C. A., Guzzonato, F., van Esse, H. P., Boekschoten, M., Ridder, L., de Vries, S. C. (2016). Transcriptional Analysis of serk1 and serk3 Coreceptor Mutants. Plant Physiology, 172(4), 2516–2529. https://doi.org/10.1104/pp.16.01478

van Hees, V., Thaler-Kall, K., Wolf, K.-H., Brønd, J., Bonomi, A., Schulze, M., Horsch, A. (2016). Challenges and Opportunities for Harmonizing Research Methodology: Raw Accelerometry. Methods of Information in Medicine, 55(06), 525–532. https://doi.org/10.3414/ME15-05-0013

van Nieuwpoort, R. V. (2016). Towards exascale real-time RFI mitigation. In 2016 Radio Frequency Interference (RFI) (pp. 69–74). Socorro, NM, USA: IEEE. https://doi.org/10.1109/RFINT.2016.7833534

2015

Alvanaki, F., Goncalves, R., Ivanova, M., Kersten, M., & Kyzirakos, K. (2015). GIS navigation boosted by column stores. Proceedings of the VLDB Endowment, 8(12), 1956–1959. https://doi.org/10.14778/2824032.2824110

Attema, J. J., Heusinkveld, B. G., Ronda, R. J., Steeneveld, G. J., & Holtslag, A. A. M. (2015). Summer in the City: Forecasting and Mapping Human Thermal Comfort in Urban Areas. In 2015 IEEE 11th International Conference on e-Science (pp. 243–248). Munich, Germany: IEEE. https://doi.org/10.1109/eScience.2015.21

Bakker, R., Fangstrom, D., Koek, M., Ranguelova, E., Meulenbroek, O., Burgmans, S., Tiesinga, P. (2015). Frontiers | A hippocampal volume-based biomarker for use in multi-cohort, heterogeneous MRI data sets. In Fronteers of Neuroinformatics. https://doi.org/10.3389/conf.fninf.2015.19.00042

Bell, J. A., Hamer, M., van Hees, V. T., Singh-Manoux, A., Kivimaki, M., & Sabia, S. (2015). Healthy obesity and objective physical activity. American Journal of Clinical Nutrition, 102(2), 268–275. https://doi.org/10.3945/ajcn.115.110924

Borgdorff, J., Krishna, H., & Lees, M. H. (2015). SIM-CITY: An e-Science framework for Urban Assisted Decision Support. Procedia Computer Science, 51, 2327–2336. https://doi.org/10.1016/j.procs.2015.05.399

Buitinck, L., van Amerongen, J., Tan, E., & de Rijke, M. (2015). Multi-emotion Detection in User-Generated Reviews. In A. Hanbury, G. Kazai, A. Rauber, & N. Fuhr (Eds.), Advances in Information Retrieval (Vol. 9022, pp. 43–48). Cham: Springer International Publishing. https://doi.org/10.1007/978-3-319-16354-3_5

Buschenhenke, F., van Dalen-Oskam, K., Martinez-Ortiz, C., & Koolen, M. (2015). Beyond the Book: globalization in literature from a digital perspective. Presented at the DH Benelux. Retrieved from http://dhbenelux.org/wp-content/uploads/2015/04/25.pdf

Cavelaars, M., Rousseau, J., Parlayan, C., de Ridder, S., Verburg, A., Ross, R., Verheul, H. (2015). OpenClinica. In Journal of Clinical Bioinformatics (Vol. 5, p. S2). https://doi.org/10.1186/2043-9113-5-S1-S2

Corti, S., Palmer, T., Balmaseda, M., Weisheimer, A., Drijfhout, S., Dunstone, N., Wouters, B. (2015). Impact of Initial Conditions versus External Forcing in Decadal Climate Predictions: A Sensitivity Experiment. Journal of Climate, 28(11), 4454–4470. https://doi.org/10.1175/JCLI-D-14-00671.1

D’Agostino, D., & Seinstra, F. J. (2015). A parallel isosurface extraction component for visualization pipelines executing on GPU clusters. Journal of Computational and Applied Mathematics, 273, 383–393. https://doi.org/10.1016/j.cam.2014.05.019

Eijssen, L., Evelo, C., Kok, R., Mons, B., Hooft, R., & and the other founding members of DTL Data (see Acknowledgements). (2015). The Dutch Techcentre for Life Sciences: Enabling data-intensive life science research in the Netherlands. F1000Research. https://doi.org/10.12688/f1000research.6009.2

Fleuren, W. W. M., & Alkema, W. (2015). Application of text mining in the biomedical domain. Methods, 74, 97–106. https://doi.org/10.1016/j.ymeth.2015.01.015

Goncalves, R., Ivanova, M., Alvanaki, F., Maassen, J., Kyzirakos, K., Martinez-Rubi, O., & Muhleisen, H. (2015). A Round Table for Multi-disciplinary Research on Geospatial and Climate Data (pp. 165–170). IEEE. https://doi.org/10.1109/eScience.2015.65

Haren, R. van, Haarsma, R. J., Vries, H. de, Oldenborgh, G. J. van, & Hazeleger, W. (2015). Resolution dependence of circulation forced future central European summer drying. Environmental Research Letters, 10(5), 055002. https://doi.org/10.1088/1748-9326/10/5/055002

Hazeleger, W., van den Hurk, B. J. J. M., Min, E., van Oldenborgh, G. J., Petersen, A. C., Stainforth, D. A., Smith, L. A. (2015). Tales of future weather. Nature Climate Change, 5(2), 107–113. https://doi.org/10.1038/nclimate2450

Hijma, P., van Nieuwpoort, R. V., Jacobs, C. J. H., & Bal, H. E. (2015). Stepwise-refinement for performance: a methodology for many-core programming: Stepwise-Refinement for Performance. Concurrency and Computation: Practice and Experience, 27(17), 4515–4554. https://doi.org/10.1002/cpe.3416

Hijma, Pieter, Jacobs, C. J. H., Nieuwpoort, R. V. van, & Bal, H. E. (2015). Cashmere: Heterogeneous Many-Core Computing. In 2015 IEEE International Parallel and Distributed Processing Symposium (pp. 135–145). Hyderabad, India: IEEE. https://doi.org/10.1109/IPDPS.2015.38

Krikken, F., & Hazeleger, W. (2015). Arctic Energy Budget in Relation to Sea Ice Variability on Monthly-to-Annual Time Scales. Journal of Climate, 28(16), 6335–6350. https://doi.org/10.1175/JCLI-D-15-0002.1

Locati, M. D., Terpstra, I., de Leeuw, W. C., Kuzak, M., Rauwerda, H., Ensink, W. A., Dekker, R. J. (2015). Improving small RNA-seq by using a synthetic spike-in set for size-range quality control together with a set for data normalization. Nucleic Acids Research, 43(14), e89–e89. https://doi.org/10.1093/nar/gkv303

Lusher, S. J., & Ritschel, T. (2015). Finding the right approach to big data-driven medicinal chemistry. Future Medicinal Chemistry, 7(10), 1213–1216. https://doi.org/10.4155/fmc.15.58

Martinez-Ortiz, C., Aroyo, L., Inel, O., Champilomatis, S., Dumitrache, A., & Timmermans, B. (2015). Provenance-driven Representation of Crowdsourcing Data for Efficient Data Analysis (pp. 300–303). IEEE. https://doi.org/10.1109/eScience.2015.63

Martinez-Ortiz, C., Koolen, M., Buschenhenke, F., & Dalen-Oskam, K. van. (2015). Beyond the Book: Linking Books to Wikipedia. In 2015 IEEE 11th International Conference on e-Science (pp. 12–21). Munich, Germany: IEEE. https://doi.org/10.1109/eScience.2015.12

Martinez-Ortiz, Carlos, Buschenhenke, Floor, van Dalen-Oskam, Karina, & Koolen, Marijn. (2015). Predicting the international Appeal of novels. Presented at the Digitial Humanities Conference 2015, Sydney, Australia. Retrieved from http://dh2015.org/abstracts/xml/KOOLEN_Marijn_Predicting_the_International_Appeal/ KOOLEN_Marijn_Predicting_the_International_Appeal/

Martinez-Rubi, O., van Oosterom, P., Gonçalves, R., Tijssen, T., Ivanova, M., Kersten, M. L., & Alvanaki, F. (2015). Benchmarking and improving point cloud data management in MonetDB. SIGSPATIAL Special, 6(2), 11–18. https://doi.org/10.1145/2744700.2744702

Martinez-Rubi, O., Verhoeven, S., van Meersbergen, M., Schutz, M., van Oosterom, P., Goncalves, R., & Tijssen, T. (2015). Taming the beast: Free and open-source massive point cloud web visualization. Presented at the Capturing Reality Forum, Salzburg, Austria: Zenodo. https://doi.org/10.5281/zenodo.1051101

Mihaleva, V. V., Ünlü, F. Y., Vervoort, J., & Ridder, L. (2015). Automated Annotation of Microbial and Human Flavonoid-Derived Metabolites. In S. Kochhar & F.-P. Martin (Eds.), Metabonomics and Gut Microbiota in Nutrition and Disease (pp. 109–124). London: Springer London. https://doi.org/10.1007/978-1-4471-6539-2_6

Sabia, S., Cogranne, P., van Hees, V. T., Bell, J. A., Elbaz, A., Kivimaki, M., & Singh-Manoux, A. (2015). Physical Activity and Adiposity Markers at Older Ages: Accelerometer Vs Questionnaire Data. Journal of the American Medical Directors Association, 16(5), 438.e7-438.e13. https://doi.org/10.1016/j.jamda.2015.01.086

Sclocco, A., Bal, H. E., & Nieuwpoort, R. V. van. (2015). Finding Pulsars in Real-Time. In 2015 IEEE 11th International Conference on e-Science (pp. 98–107). Munich, Germany: IEEE. https://doi.org/10.1109/eScience.2015.11

Sclocco, A., van Leeuwen, J., Bal, H. E., & van Nieuwpoort, R. V. (2015). A real-time radio transient pipeline for ARTS. In 2015 IEEE Global Conference on Signal and Information Processing (GlobalSIP) (pp. 468–472). Orlando, FL, USA: IEEE. https://doi.org/10.1109/GlobalSIP.2015.7418239

van der Zwaan, J., Leemans, I., Kuijpers, E., & Maks, I. (2015). HEEM, a Complex Model for Mining Emotions in Historical Text. In 2015 IEEE 11th International Conference on e-Science (pp. 22–30). Munich, Germany: IEEE. https://doi.org/10.1109/eScience.2015.18

van Haren, R., Haarsma, R. J., Van Oldenborgh, G. J., & Hazeleger, W. (2015). Resolution Dependence of European Precipitation in a State-of-the-Art Atmospheric General Circulation Model. Journal of Climate, 28(13), 5134–5149. https://doi.org/10.1175/JCLI-D-14-00279.1

van Hees, V. T., Sabia, S., Anderson, K. N., Denton, S. J., Oliver, J., Catt, M., Singh-Manoux, A. (2015). A Novel, Open Access Method to Assess Sleep Duration Using a Wrist-Worn Accelerometer. PLOS ONE, 10(11), e0142533. https://doi.org/10.1371/journal.pone.0142533

van Oosterom, P., Martinez-Rubi, O., Ivanova, M., Horhammer, M., Geringer, D., Ravada, S., Gonçalves, R. (2015). Massive point cloud data management: Design, implementation and execution of a point cloud benchmark. Computers & Graphics, 49, 92–125. https://doi.org/10.1016/j.cag.2015.01.007

Werkhoven, B. van, & Hijma, P. (2015). An Integrated Approach to Porting Large Scientific Applications to GPUs. In 2015 IEEE 11th International Conference on e-Science (pp. 57–66). Munich, Germany: IEEE. https://doi.org/10.1109/eScience.2015.23

2014

Bakker, R., Koek, M., Ranguelova, E., de Boer, P., Meulenbroek, O., Burgmans, S., Tiesinga, Paul. (2014). Frontiers | eScience Infrastructure for running validated image analysis pipelines: <br />how to best compare MRI scans from different medical centers. In Fronteers of Neuroinformatics. https://doi.org/10.3389/conf.fninf.2014.18.00088

Bierkens, M. F. P., Bell, V. A., Burek, P., Chaney, N., Condon, L. E., David, C. H., Wood, E. F. (2014). Hyper-resolution global hydrological modelling: what is next?: “Everywhere and locally relevant”. Hydrological Processes, 29(2), 310–320. https://doi.org/10.1002/hyp.10391

Bintanja, R., Severijns, C., Haarsma, R., & Hazeleger, W. (2014a). The future of Antarctica’s surface winds simulated by a high-resolution global climate model: 1. Model description and validation: THE FUTURE OF ANTARCTICA’S SURFACE WINDS. Journal of Geophysical Research: Atmospheres, 119(12), 7136–7159. https://doi.org/10.1002/2013JD020847

Bintanja, R., Severijns, C., Haarsma, R., & Hazeleger, W. (2014b). The future of Antarctica’s surface winds simulated by a high-resolution global climate model: 2. Drivers of 21st century changes: The future of Antarctica’s surface winds. Journal of Geophysical Research: Atmospheres, 119(12), 7160–7178. https://doi.org/10.1002/2013JD020848

Brunnabend, S.-E., Dijkstra, H. A., Kliphuis, M. A., van Werkhoven, B., Bal, E., Seinstra, F., van Meersbergen, M. (2014a). Changes in extreme regional sea surface height due to an abrupt weakening of the Atlantic MOC. Ocean Science Discussions, 11(2), 1213–1241. https://doi.org/10.5194/osd-11-1213-2014

Brunnabend, S.-E., Dijkstra, H. A., Kliphuis, M. A., van Werkhoven, B., Bal, H. E., Seinstra, F., van Meersbergen, M. (2014b). Changes in extreme regional sea surface height due to an abrupt weakening of the Atlantic meridional overturning circulation. Ocean Science, 10(6), 881–891. https://doi.org/10.5194/os-10-881-2014

da Silva, I. C., van Hees, V. T., Ramires, V. V., Knuth, A. G., Bielemann, R. M., Ekelund, U., Hallal, P. C. (2014). Physical activity levels in three Brazilian birth cohorts as assessed with raw triaxial wrist accelerometry. International Journal of Epidemiology, 43(6), 1959–1968. https://doi.org/10.1093/ije/dyu203

Hildebrand, M., Van Hees, V. T., Hansen, B. H., & Ekelund, U. (2014). Age Group Comparability of Raw Accelerometer Output from Wrist- and Hip-Worn Monitors: Medicine & Science in Sports & Exercise, 46(9), 1816–1824. https://doi.org/10.1249/MSS.0000000000000289

Lusher, S. J., McGuire, R., van Schaik, R. C., Nicholson, C. D., & de Vlieg, J. (2014). Data-driven medicinal chemistry in the era of big data. Drug Discovery Today, 19(7), 859–868. https://doi.org/10.1016/j.drudis.2013.12.004

Madougou, S., Varbanescu, A. L., de Laat, C., & van Nieuwpoort, R. (2014). An Empirical Evaluation of GPGPU Performance Models. In L. Lopes, J. Žilinskas, A. Costan, R. G. Cascella, G. Kecskemeti, E. Jeannot, M. Alexander (Eds.), Euro-Par 2014: Parallel Processing Workshops(Vol. 8805, pp. 165–176). Cham: Springer International Publishing. https://doi.org/10.1007/978-3-319-14325-5_15

Madougou, S., Varbanescu, A. L., & Nieuwpoort, R. V. (2014). Optimizing a Calibration Software for Radio Astronomy. In 2014 IEEE Intl Conf on High Performance Computing and Communications, 2014 IEEE 6th Intl Symp on Cyberspace Safety and Security, 2014 IEEE 11th Intl Conf on Embedded Software and Syst (HPCC,CSS,ICESS) (pp. 1158–1165). Paris, France: IEEE. https://doi.org/10.1109/HPCC.2014.189

Piersma, H., Tames, I. M., Buitinck, L. J., van Doornik, J., & Marx, M. J. (2014). War in Parliament: What a Digital Approach Can Add to the Study of Parliamentary History. Digital Humanities Quarterly, 8(1). Retrieved from www.digitalhumanities.org/dhq/vol/8/1/000176/000176.html

Ridder, L., van der Hooft, J. J. J., & Verhoeven, S. (2014). Automatic Compound Annotation from Mass Spectrometry Data Using MAGMa. Mass Spectrometry, 3(Special_Issue_2), S0033–S0033. https://doi.org/10.5702/massspectrometry.S0033

Ridder, L., van der Hooft, J. J. J., Verhoeven, S., de Vos, R. C. H., Vervoort, J., & Bino, R. J. (2014). In Silico Prediction and Automatic LC–MSn Annotation of Green Tea Metabolites in Urine. Analytical Chemistry, 86(10), 4767–4774. https://doi.org/10.1021/ac403875b

Sabia, S., van Hees, V. T., Shipley, M. J., Trenell, M. I., Hagger-Johnson, G., Elbaz, A., Singh-Manoux, A. (2014). Association Between Questionnaire- and Accelerometer-Assessed Physical Activity: The Role of Sociodemographic Factors. American Journal of Epidemiology, 179(6), 781–790. https://doi.org/10.1093/aje/kwt330

Sanders, M. P., Ridder, L., Alkema, W., Fleuren, W. W., & Lusher, S. J. (2014). Data-driven food research - The 4th paradigm applied to nutrition. PharmaNutrition, 2(3), 84. https://doi.org/10.1016/j.phanu.2013.11.027

Sclocco, A., Bal, H. E., Hessels, J., Leeuwen, J. van, & Nieuwpoort, R. V. van. (2014). Auto-Tuning Dedispersion for Many-Core Accelerators. In 2014 IEEE 28th International Parallel and Distributed Processing Symposium (pp. 952–961). Phoenix, AZ, USA: IEEE. https://doi.org/10.1109/IPDPS.2014.101

van Hees, V. T., Fang, Z., Langford, J., Assah, F., Mohammad, A., da Silva, I. C. M., Brage, S. (2014). Autocalibration of accelerometer data for free-living physical activity assessment using local gravity and temperature: an evaluation on four continents. Journal of Applied Physiology, 117(7), 738–744. https://doi.org/10.1152/japplphysiol.00421.2014

van Werkhoven, B., Maassen, J., Kliphuis, M., Dijkstra, H. A., Brunnabend, S. E., van Meersbergen, M., Bal, H. E. (2014). A distributed computing approach to improve the performance of the Parallel Ocean Program (v2.1). Geoscientific Model Development, 7(1), 267–281. https://doi.org/10.5194/gmd-7-267-2014

van Werkhoven, Ben, Maassen, J., Bal, H. E., & Seinstra, F. J. (2014). Optimizing convolution operations on GPUs using adaptive tiling. Future Generation Computer Systems, 30, 14–26. https://doi.org/10.1016/j.future.2013.09.003

Werkhoven, B. van, Maassen, J., Seinstra, F. J., & Bal, H. E. (2014). Performance Models for CPU-GPU Data Transfers. In 2014 14th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (pp. 11–20). Chicago, IL, USA: IEEE. https://doi.org/10.1109/CCGrid.2014.16

2013

S.J. Lusher, P. Conti, W. Dokter, P.H. Hermkens, J. De Vlieg, Drug design approaches to manipulate the agonist-antagonist equilibrium in steroid receptors, in: Steroid Hormones, 2011: pp. 221–234.

J.J.J. van der Hooft, R.C.H. de Vos, V. Mihaleva, R.J. Bino, L. Ridder, N. de Roo, et al., Structural elucidation and quantification of phenolic conjugates present in human urine after tea intake., Analytical Chemistry. 84 (2012) 7263–71.

R. Lonsdale, S. Hoyle, D.T. Grey, L. Ridder, A.J. Mulholland, Determinants of reactivity and selectivity in soluble epoxide hydrolase from quantum mechanics/molecular mechanics modeling., Biochemistry. 51 (2012) 1774–86.

P. Elfferich, M.E. van Royen, D.J. van de Wijngaart, J. Trapman, S.L.S. Drop, S.J. Lusher, E.L.T. van den Akker, et al., Variable Loss of Functional Activities of Androgen Receptor Mutants in Patients with Androgen Insensitivity Syndrome, Sexual Development. 7 (2013) 223–234.

W.W.M. Fleuren, E.J.M. Toonen, S. Verhoeven, R. Frijters, T. Hulsen, T. Rullmann, et al., Identification of new biomarker candidates for glucocorticoid induced insulin resistance using literature mining, BioData Mining. 6 (2013).

L. Ridder, J.J.J. Van Der Hooft, S. Verhoeven, R.C.H. De Vos, R.J. Bino, J. Vervoort, Automatic chemical structure annotation of an LC-MSn based metabolic profile from green tea., Analytical Chemistry. (2013).

L. Ridder, J.J.J. Van Der Hooft, S. Verhoeven, R.C.H. De Vos, R. Van Schaik, J. Vervoort, Substructure-based annotation of high-resolution multistage MS(n) spectral trees., Rapid Communications in Mass Spectrometry RCM. 26 (2012)

Technology

Technology

Big Data Analytics

Identifying patterns and relationships

  • data exploration
  • analysis
  • data mining
  • machine learning
  • text analysis
  • natural language processing
  • statistics and visualization

Read more

Optimized Data Handling

Accessing and analyzing voluminous and rapidly generated data

  • real-time data analysis
  • database optimization
  • data-interoperability
  • combining structured and unstructured data

Read more

Efficient Computing

Optimizing for hardware performance

  • high-performance and distributed computing (e.g. GRID, Cloud)
  • heterogeneous computing
  • efficient algorithms
  • accelerator hardware (e.g. GPUs)
  • green computing

Read more

Contact

Director of Technology Prof. Rob van Nieuwpoort

Rob is responsible for eScience Technology development in all projects, project leader of our eScience technology platform, and manager of the eScience engineers.

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Kom bij ons programmeren tijdens het Weekend van de Wetenschap!

Kom bij ons programmeren tijdens het Weekend van de Wetenschap!

Wil je leren programmeren? Dit is je kans! Het Netherlands eScience Center organiseert op zaterdag 7 oktober 3 workshops programmeren voor kinderen. De workshops zullen worden gegeven door vier eScience Research Engineers van het eScience Center. Spelenderwijs zullen zij de kinderen leren programmeren.

Let op: er is beperkt plek - scroll naar beneden om je aan te melden.

Doelgroep

Deze activiteit is geschikt voor kinderen van 8 t/m 12 jaar.

Tijdstippen workhops

Er starten programmeer-workshops om 12:00 uur, 14:00 uur en 16:00 uur.

Aanmelden

Voor deze activiteit dien je je aan te melden. Je kunt je aanmelden door te mailen naar s.vanbreugel@esciencecenter.nl. Geef daarbij aan met hoeveel kinderen je wilt deelnemen aan de workshop en naar welk tijdstip je voorkeur uit gaat.

IEEE eScience Conference 2018

IEEE eScience Conference 2018

Amsterdam, The Netherlands
29 October - 1 November 2018

The fourteenth IEEE eScience Conference will be held in Amsterdam, The Netherlands from 29 October - 1 November 2018. The objective of the eScience Conference is to promote and encourage all aspects of eScience and its associated technologies, applications, and tools.

Please visit the official website www.eScience2018.com for more information.

FAIR: Facts and Implementations - A workshop on the new requirements for Data in Open Science

FAIR: Facts and Implementations - A workshop on the new requirements for Data in Open Science

When & where
14 September 2017, 12:30 – 18:30
Netherlands eScience Center
Science Park 140, Amsterdam

What
An exchange of status, visions, experiences to be Findable, Accessible, Interoperable and Reusable. Learn best practices and show us yours.

Registration
The workshop (in English) is free of charge, but registration is mandatory. Please register by email to info@esciencecenter.nl, with your name, affiliation and science domain you work in. This information is necessary for us to plan the breakout Sessions.

On 14 September 2017 ePLAN organizes a workshop for researchers and policy makers on FAIR data. FAIR data refers to data being Findable, Accessible, Interoperable and Reusable, with the goal to make science more transparent, efficient and accessible. It is to be expected that FAIR principles will be increasingly more often used by funding agencies and institutes in the academic domain as a minimum standard for added value creation for data that are created in academia. It is therefore important, both for the development of good academic practice as for future funding of research to learn master the terms and ideas the constitute FAIR. So, for example, is the implementation of the term Interoperable no trivial matter and generally different depending on discipline. At the same time one of the goals is to share and reuse data across disciplines. Which aspects of FAIR form the greatest challenge, which matters are discipline specific and which matters can be dealt with nationally and which need to be addressed internationally. Is FAIR concerned with data only, or are workflows, software and algorithms equally important?

These topics are the subjects of the ePLAN Workshop “FAIR” organized by the Netherlands eScience Center. The target audience are researchers who want to know and managers of universities, institutes or departments that need to know, in order to support and advise researchers locally on Research Data Management Planning.

Program
12:30-13:00
Reception
13:00-13:15 Opening by Wilco Hazeleger
13:15-13:45 Aspects of FAIRness by Barend Mons
13:45-14:15 The I in FAIR, Peter Doorn
14:15-14:45 The Open Science Survey Gareth O'Neill - Eurodoc
14:45-15:45 Break-out sessions Domain specific implementation(s) intro
15:45-16:00 Break
16:00-17:00 Break-out sessions
17:00-17:30 Plenary reporting
17:30-18:30 Drinks

Hosted by ePLAN
This workshop is hosted by ePLAN. ePLAN is the national Platform of eScience/Data Research organizations in the Netherlands. ePLAN unites the national efforts of eScience and data research groups across the country to strengthen the national position in the eScience and data research domain. www.escience-platform.nl

Job Opportunity: Director Operations (Directeur Bedrijfsvoering)

Job Opportunity: Director Operations (Directeur Bedrijfsvoering)

We are looking for an enthusiastic:

Director Operations (Directeur Bedrijfsvoering) (m/f)

0.6 - 0.8 FTE

Application deadline: 31 July 2017

About the eScience Center

The eScience Center is an expertise center for strengthening scientific research with digital technology. We work closely together with scientists - from psychologists to astronomers, from biologists to historians and from climate scientists to sociologists. With our expertise in developing research software we pioneer and push the boundaries of their scientific research.

The position

The Director Operations is responsible for all financial and legal matters at the eScience Center, administrative processes around our project portfolio, housing and office IT, and human resource management. The candidate steers a small team of financial and human resource advisors and is part of the management team of the eScience Center. The candidate makes sure the internal processes run smoothly and has the final responsibility on the administrative and human resources matters. Together with other members of the management team strategic directions are developed and the implementation is overseen.

We are looking for an enthusiastic team player who will contribute to a growing and flexible organization with many stakeholders. Our candidate should have proven experience with managing financial matters and human resources and managing a team. Experience with scientific research and digital technologies is an advantage.

We require

  • Academic level (obtained through education, training and/or experience), e.g. business administration and management;
  • Demonstrable experience in financial administration;
  • Demonstrable experience with human resources management;
  • Knowledge of administrative software packages (e.g. Exact);
  • Experience with management of a team;
  • Affinity with scientific research and advanced digital technologies;
  • Experience with administrative aspects of research funding (e.g. NWO, H2020);
  • Excellent command of Dutch and English (both verbally and written);

Competences

  • A critical and constructive attitude to contribute actively to the eScience Center;
  • Motivated, flexible, creative, initiative taking, independent but also a real team player;
  • Strong communication and organization skills;
  • Accuracy and responsibility.

Working conditions

We offer a position at the eScience Center for 0.6 - 0.8 FTE (24 - 32 hours per week), initially for a fixed period of 2 years, within the collective agreement for Research Institutes (cao-WVOI). Classification is based on education and experience with salary depending on qualifications and experience, starting from € 4.908,- up to € 6.565,- gross per month, based on a 38-hour working week. Holiday pay amounts to 8% of gross salary actually received and a 13th month of salary as an end-of-year payment.

Information

The eScience Center offers a challenging position at the interface of scientific research and digital technologies. You will work in an international team with an informal but creative and ambitious working environment. The location is Amsterdam (Science Park). For more information about this opportunity, you can contact Wilco Hazeleger, Director Netherlands eScience Center, by emailing info@esciencecenter.nl or by calling +31 (0)20 460 4770.

Please send your resume and application letter before the 31st of July 2017 via vacancy@esciencecenter.nl. Additional information may also be found at our website www.eScienceCenter.nl.

Workshop Licenties Verplicht

Workshop Licenties Verplicht

*This workshop is in Dutch

Maakt u software? Of bent u verantwoordelijk voor wetenschappelijke software-ontwikkeling van uw organisatie? Ooit een licentie moeten kiezen, maar zonder goede criteria? Dan is deze workshop voor u!

Op 23 juni 2017 organiseert ePLAN, het Platform van eScience/Data Research Centra in Nederland, de workshop Licenties Verlicht, over de keuze van software licenties in het academisch domein. Iedereen die te maken heeft of denkt te krijgen met de keus voor een software licentie, of die verantwoordelijk is voor het licentiebeleid is welkom bij de workshop, mits aangemeld.

Onderzoekers zijn veelal onbekend met het principe van software licenties, zelfs als ze dagelijks software schrijven. De simpele mededeling dat iedereen er gebruik van mag maken, is onvoldoende wettelijke basis voor het uitdrukken van deze bedoeling. Experts en belangstellende discussiëren tijdens de workshop over de voor- en nadelen van en bepaalde keus en over de risico’s.

Als keynote spreker zal optreden Arnoud Engelfriet.

Waar & Wanneer
Vrijdag 23 juni 2017
12:00-18:00 uur
Netherlands eScience Center
Science Park 140, Amsterdam

Programma

12:00-13:00 Ontvangst met broodjes
13:00-13:15 Opening - Wilco Hazeleger en Rob van Nieuwpoort
13:15-14:00 Keynote Arnoud Engelfriet
14:00-14:20 Softwarelicenties bij het eScience Center – Lourens Veen
14:20-14:40 Softwarelicenties bij SURFsara
14:40-15:00 Softwarelicenties bij ePLAN-leden
15:00-15:20 Pauze
15:20-16:30 Breakout – discussies over licentiekeuzes
16:30-16:50 Plenaire terugkoppelingen
16.50-17.00 Afsluiting
17:00-18:00 Borrel

Aan de deelname zijn geen kosten verbonden, maar aanmelding is nodig op k.elhadji@esciencecenter.nl

Joint CSER and eScience Programme for Energy Research

Joint CSER and eScience Programme for Energy Research

This call is closed for 2017

This call for proposals is not only aimed to the participants in the CSER programme, but rather to the broad community of computational scientists performing energy research. The topics of research will remain, however, the same as within the current CSER programme, namely:

  • computational geoscience
  • wind and solar energy
  • multiphase flows
  • computational chemistry
  • and material sciences for energy research

Detailed information, and instructions for proposal submissions, can be found on the NWO website.

Purpose

This call for project proposals is aimed for computational sciences for energy research, focused on developing eScience technologies (i.e. research software and methods for data analytics, data management, efficient computing - the core technological competences of the eScience Center).

When to apply

The deadline for the submission of pre-proposals is 30 May 2017, 14:00 CEST.
The deadline for submission of full proposals is 31 August 2017 14:00 CEST.

Information Event

To allow interested applicants to get acquainted with the eScience Center’s strategy and approach, the role of the eScience Research Engineers, the capabilities of the Dutch National e-Infrastructure, the software technologies implemented and applied by the eScience Center, and the aim of this call for proposals, an information event will be organized at the eScience Center (Amsterdam, Science Park 140) on 13 April 2017.

Registration is required (below). Presence of at least one applicant at the information event is highly recommended, but not mandatory.

09:30 – 09:45 Introduction eScience Center 
09:45 – 10:00 Introduction NWO-Shell CSER Programme 
10:00 – 10:20 eScience Technology Platform 
10:20 – 10:45 JCER Call for Proposals 
10:45 – 11:15 Examples of eScience projects 
11:15 – 11:30 SURF e-Infrastructure
11:30 – 12:30 Questions

Registration information event

* indicates required



 


 


 


 

 

Date & location

13 April 2017
Science Park 140
1098XG Amsterdam

Accelerating Scientific Discovery Call

Accelerating Scientific Discovery Call

This call is closed for 2017

We invite domains scientists working in application fields such as Environment & Sustainability or Life Sciences & eHealth to apply for funding.

Purpose

The purpose of this Call for Proposals is to enable domain scientists to address compute-intensive and/or data-driven problems within their research.

The call aims to fund proposals that pursue new scientific domain challenges and that enhance and accelerate the process of scientific discovery within the field of application using eScience technologies. To achieve this, submitted proposals should be characterized by the usage, adaptation, and integration of eScience methods and tools, including software for optimized data handling, Big Data analytics, and efficient computing (the core technological competences of the eScience Center).

Projects awarded in this call typically will be led by PIs from domain science (application disciplines).

When to apply

The deadline for the submission of pre-proposals is 18 May 2017, 14:00 CEST.
The deadline for submission of full proposals is 31 August 2017 14:00 CEST.

Download

Pre-Proposal

Full proposal

Submit your proposal

Please submit your proposal using NWO's electronic application system ISAAC:

Submit here


In case you experience problems submitting your proposal, please also send to asdi-call@esciencecenter.nl.

This call is processed by NWO for the Netherlands eScience Center. The eScience Center Board decides in granting and rejection, and all grants will be awarded by the eScience Center.

Information event recordings

Joint eScience and Data Science Call

Joint eScience and Data Science Call

This call is closed for 2017

The Netherlands eScience Center, Netherlands Organisation for Scientific Research (NWO) Domain Science, and Commit2Data invite technology-oriented researchers to apply for funding and support for researching and developing disruptive solutions associated with big data handling, big data analytics and related computational methods.

Purpose

This call for proposals aims at research and development of disruptive solutions associated with big data handling, big data analytics and related computational methods in order to be able to address the novel cross-sectoral scientific challenges described in the Commit2Data White Paper.

Since this is a joint eScience Center and NWO call for proposals directed towards Commit2Data challenges, the horizontal intersecting themes of Commit2Data are aligned with the core technological competences of the eScience Center.

When to apply

The deadline for the submission of pre-proposals is 18 May 2017, 14:00 CEST.
The deadline for submission of full proposals is 31 August 2017 14:00 CEST.

Download

Pre-Proposal

Full proposal

Submit your proposal

Please submit your proposal using NWO's electronic application system ISAAC:

Submit here


In case you experience problems submitting your proposal, please also send to dtec-call@esciencecenter.nl.

Information event recordings

Lorentz-eScience competition 2018

Lorentz-eScience competition 2018

The Netherlands eScience Center and the Lorentz Center are looking for researchers who want to join the Lorentz-eScience competition and organize a workshop at the Lorentz Center@Snellius, Leiden, the Netherlands.

The Lorentz-eScience competition aims to host a leading-edge workshop on digitally enhanced research (efficient utilization of data, software and e-infrastructure). The workshop topic should bring together researchers from the academic scientific community and the public/private sector.

What we seek
• an innovative scientific programme, that takes us beyond our current boundaries
• an open and interactive format, with few lectures
• at least one scientific organizer based within and one outside the Netherlands
• at least one scientific organizer from the academic sector and one from the public/private sector

What we offer
• a 5-day workshop for up to 25 people in the first half of 2018
• travel and accommodation reimbursements
• no registration fees or other organizational costs
• a professional support organization

Procedure
• a 1-page expression of interest by 15 April 2017
• a full application by 6 June 2017
• final decision end of June 2017
• submit applications to: proposal@lorentzcenter.nl

Information
• Wilco Hazeleger, director Netherlands eScience Center; w.hazeleger@esciencecenter.nl
• Arjen Doelman, director Lorentz Center; doelman@lorentzcenter.nl
• Henriette Jensenius, scientific manager Lorentz Center; jensenius@lorentzcenter.nl

Talking eScience 2017

Talking eScience 2017

eScience Principal Investigator Day

On Monday 30 January our team of eScience Research Engineers and eScience Principal Investigators came together to talk about shared challenges across different research disciplines. View the photo album on Flickr.

What do ecology, psychology and medical science have in common? And what digital technologies do we need to engage in those shared challenges, how do we bridge gaps between disciplines, and how do we combine expertise from different domains with expertise from computer and data science?

Breaking the jargon barrier

Starting the day with a talkshow illustrated the potential as well as the difficulty of bringing such diverse fields of research together. Ecologists and meteorologists discussed the possibilities of sharing data. Communication challenges also quickly became apparent when psychologists and computer scientists started talking about language (“are we talking about human language or programming language?”) and different interpretations of concepts (“what is the difference between text mining and natural language processing?”).

It shows the value of organizing a day like this, where we can try to work on shared understandings, break the jargon barrier, and inspire each other with unexpected perspectives.

After many discussions, six topics were identified as relevant for a follow-up colloquium:

1. Deep Learning in Science
2. Data analytics
3. Visualization
4. Multi-scale modelling
5. Data integration
6. Tools and access to e-infrastructure

The topics were discussed in in-depth sessions, after which each in-depth group presented a short pitch on why the eScience Center should organize a colloquium on this topic. While each topic is absolutely worth a colloquium, the most suitable topic was judged to be Visualization. Sign up for our mailing list to stay up to date on this colloquium!

Continue reading if you are interested in what was said during the six pitches!

Why are these topics so relevant today?


eScience Technical Lead Willem van Hage pitches for deep learning in science

Deep learning in science

Machine learning is a fast-growing and exciting field in research, and deep learningrepresents its state-of-the-art. Machine Learning and Deep Learning involve feeding a computer system a lot of data, which it can use to make decisions about other data. Deep Learning enables many researchers to scale up their machine learning in ways they couldn’t do before.

That opens new avenues to ask new questions in many fields. When there are too many features to pre-code in your models, and you want to explore the field, Deep Learning saves you time for the creative part of science instead of spending too much time on the mundane technical data.

What do we need to make progress with the application of Deep Learning in scientific research? A great start would be symposium for various fields of science that can profit from Deep Learning. Because it’s so fast, and so new, it’s very hard to stay up to date with current developments. You need to discuss new technological developments, but also new applications. It would be very useful to share prototype implementations in various fields so you can see commonalities and differences. And to share what is the best learning material to get you started.

We need MOOCS and not books – we need online material that can change as the field changes. And we need access and examples of how to gain access to infrastructure with specific support – for example with GPU clusters but also with high-speed networks.


eScience Research Engineers and eScience Principal Investigators talking about the future of data analytics

Data analytics

We use models to make predictions about the future. For example, to fight or prevent poverty, or to detect where slums are evolving in cities. To develop and analyze these models we need a set of tools.

However, there are so many methods available that we are blinded by the complexity. And we do not always know what the real truth is – because what is the truth in the future? We simply cannot evaluate these methods, and do not know which is the best one. We have so many different fields of expertise, but there is a gap between those fields which is preventing us from combining methods it in the best way.

A course of action could be to start bringing those diverse fields of expertise together, to develop the communication between those fields. Not only between technical and scientific aspects but also between these and methodological aspects. We need communication beyond documented coding – collaborating with each other, also on an international scale, and with companies.


eScience Coordinator Adriënne Mendrik pitches for visualization

Visualization

Visualization is a way to simplify complex data and make it more attractive to people, and therefore very important not only to go from data to information but also to inspire.

A big challenge is for domain researchers to ‘trust’ the visualization. In any visualization choices are made to translate a set of data into a visualization that is more easily interpreted – inherently a process in which data is manipulated.

It is important that people are educated so they understand how visualizations come about. At the same time, it is important that researchers realize what is possible by using visualization as a tool – because there is so much potential.

Visualization is very difficult to generalize. Each research question requires a different kind of visualization. To get the most out of this technology, it is therefore important that researchers are aware of the possibilities. That enables researchers to communicate their wishes, and makes it easier for computer scientists to understand those wishes.

A symposium would be a great way to show domain scientists the potential of translating their complex data into a ‘simplified’ visualization that helps to interpret the data and inspire other researchers.


eScience Coordinator Lars Ridder pitching for multi-scale modelling

Multi-scale modelling

Going from very small level to a very high level: from cells to society, from butterflies to global climate. From the Universe to a screen. Multi-scale modelling is trending.

Why do we need multi-scale modelling? One reason is because we want to take short-cuts: We cannot compute whole systems at the lowest level of detail. Another reason is that we have data at all different levels now. This is new. And we have compute systems at different scales.

There’s a good case for multi-scale modelling. The questions we asked ourselves is: Are there generic aspects that are true for multi-scale modelling in all the different domains? For example, can we find generic rules for how to separate different scales? Can we define best practices for the interfaces between the different scales? Do we have ways of validation for these complex multi-scale models? Do we know how to map the multi-scale models to a multi-scale complex compute infrastructure?

There are many more questions than answers at this moment. That’s why we really need a workshop to work this out. We want to bring together scientists from different domains to sit together and see what the properties of their multi-scale models are and extract generic aspects that we can solve as eScience Center.


eScience Principal Investigator Chris de Graaf pitching for data integration

Data integration

Data integration allows users to see a unified view of heterogeneous data. It involves combining data from several disparate sources, which are stored using various technologies. Data integration is becoming essential to do science.

There are four things to consider: different formats, different modalities of data, ontology (a set of concepts and categories in a subject area), and also linked to that epistemology (different ontologies in different communities).

Data integration challenges can be illustrated by the following two ‘billion dollar research questions’: 1) How can you use allele and gene information to predict the size and also the robustness of crops or plants? 2) How can we combine biological activity and chemical structure information to predict polypharmacological action of drug molecules on multiple protein targets? We tried to find some common themes between the research questions

We realized initially that we have different problems. Namely, for the polypharmacological question we had the problem that there were certain data integration tools not available that we need to invest in, while for the crop prediction the whole infrastructure and ontology has to be developed and there are a lot of epistemological questions to deal with. We realized when moving to a cell based system, polypharmacological questions would have a similar problem in terms of infrastructure and ontology.

That’s why we need a symposium where we want to have case studies presented that reflect not only the challenges of this essential work but also the success stories of the science to convince people of the urgency of tackling this challnge – based on the different aspects of data integration we will come to discussion groups. And then in the end, if we get to speak the same language on either one of those elements, that will be a big success.


eScience Research Engineers and eScience Principal Investigators talking about streaming data

Streaming data

The case for a symposium on streaming data is very compelling. Imagine, you have an up to date view of all your data as it streams in. The participants in this session all shared a dream. All work with networks of sensors – be they wearables, weather buoys to collect weather and ocean data for climate research or antennas to study the universe. And it turns out that we need to study the data of these sensors continuously as they come in. We found out that we need to identify which of this real-time processing can be done by software and which by hardware. Sometimes there is so much data that you need to get it reduced in seconds.

Some of it you can run on commodity hardware, others need specialty hardware. But we, the users, don’t want to know. We need this hardware to be fault-tolerant, sustainable, and we need it to have reasoning build in. Therefore, we need a one-day workshop in which we are going to build enthusiasm for a flagship project on stream reasoning.

Photography by Elodie Burrillon, HUCOPIX

Strategy

Strategy

Strategy 2015-2020

Download: Strategy 2015-2020 & Beyond

Enabling digitally enhanced research through efficient utilization of data, software and e-infrastructure

Our responsibilities

  • Enabling Scientific Breakthroughs
    The eScience Center builds the eScience technologies and workflows that enable scientists of varying computing experience to utilize e-infrastructure components to achieve otherwise unreachable breakthroughs.
  • Developing Versatile Cross-Disciplinary eScience Tools
    While each scientific discipline is characterized by unique questions and challenges, the underlying eScience requirements are often generic. The eScience Center's developments are characterized by their domain overarching nature, promoting reuse, collaboration and prevention of “reinventing the wheel”.
  • Promoting multi-disciplinary eScience collaborations
    The era of individual researchers working in isolated groups and focused only on their own, increasingly narrow expertise, has ended. Breakthroughs are increasingly made at the interface of disciplines by groups of scientists benefitting from the combination of their diverse skills. The eScience Center's projects and the generic tools that result reflect this move to multi-disciplinary science.
  • Coordinating National eScience Activities
    The rapid growth of data and computing initiatives risks unnecessary fragmentation and duplication. The eScience Center works with numerous partner organizations, nationally and internationally, to identify common challenges such as training and career support for eScientists, as well as providing thought leadership on issues such as data-stewardship and software sustainability.


Every year we organize the National eScience Symposium with several partner organizations, bringing together many stakeholders from the eScience field. (Photography: Elodie Burrillon, HUCOPIX)

Prioritized Domains

The eScience Center primarily focuses on societally relevant applied research utilizing scientific computing, data research, and analytics in the following defined key strategic areas:

  • Environment & Sustainability
    For example: Climate, ecology, energy, logistics, water management, agriculture & food;
  • Life Sciences & eHealth
    For example: Next generation sequencing, biobanking, molecules & man;
  • Humanities & Social Sciences
    For example: SMART cities, text analysis, eBusiness, creative technologies;
  • Physics & Beyond
    For example: astronomy, high-energy physics, advanced materials, engineering & manufacturing.

The selection of prioritized domains remains as broad as possible, reflecting the generic nature of eScience and its applications. 

5th National eScience Symposium

5th National eScience Symposium

Save the date

12 October 2017
Amsterdam ArenA

More information will follow soon. 


Image: 4th National eScience Symposium, Amsterdam ArenA (Elodie Burrillon, HUCOPIX)

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    Contact

    Senior Secretary & Communications Assistant Sacha van Breugel

    Sacha is a Senior Secretary at the Netherlands eScience Center. She also acts as communications assistant and is responsible for the organization of eScience events.

    Profile page

    Whitepapers

    Whitepapers

    Infrastructuur duurzaam op maat

    Een analyse van de vraag naar ICT-infrastructuur en services in Nederland, February 2016

    Research Software at the Heart of Discovery

    Principles of Academic Software-Sustainability, February 2016

    Research Software Sustainability

    Report on a Knowledge Exchange Workshop, February 2016

    Putting down roots

    Securing the future of open access policies, January 2016

    Putting down roots

    Securing the future of open access policies, January 2016

    Data-Stewardship in the Big Data Era

    Taking Care of Data, January 2013

    Research Software Directory

    Research Software Directory

    Research Software Directory

    An important aspect of eScience is the development of new software technologies to enable scientists to make new scientific breakthroughs. Our Research Software Directory contains all the research software we develop and apply in our collaborative projects. You can visit this website here. The Research Software Directory aims to promote the impact, the exchange and re-use of best practices and to prevent fragmentation and duplication of research software.

    Encouraging the re-use of research software
    Software is an integral part of academic research. In collaboration with researchers we develop software that can be used across disciplines. We believe that re-usable, open research software is just as important to academic research as are open access publications and open data.

    To encourage the re-use of research software and to promote reproducibility, we developed the Research Software Directory. It encourages re-use via three ways:

    • Facilitating researchers to find and quickly judge the relevance and quality of research software
    • Encouraging developers to make their research software findable and accessible
    • Facilitating funders and policy makers to judge the impact of investments in research software

    Software in context
    All software on the Research Software Directory is presented within its research context. Every page contains links to research papers, projects, and presentations for example. The pages also show a social context - who are the developers, how active is the development, are there any tutorials, blog posts, or videos?

    Are you a researcher?
    For you, the Research Software Directory makes research software findable and accessible. It provides concise and contextual information about research software to help you judge its relevance for your purposes.

    Are you a developer?
    Recognition for the quality and impact of the research software you develop is important for you. It should therefore be findable and accessible - in such a way that it helps researchers judge its quality and relevance, and funders and policy makers to judge its impact.

    Are you a funder of software?
    Developing research software in a sustainable way requires a lot of investment. For you it is important to be able to judge the impact of such investments. The Research Software Directory explores ways to demonstrate the impact of research software, for example by linking software to publications and other mentions in public sources.

    Do you have feedback?

    We are happy to hear from you how we can improve the Research Software Directory. Or maybe you or your organization wants to join this initiative? Send your questions and comments to rsd@esciencecenter.nl.

    Maximizing the impact of research software on science

    Interview with Prof. Rob van Nieuwpoort (Director eScience Technology), Dr. Willem van Hage (Technical Lead Data Management & Analytics), Dr. Jason Maassen (Technical Lead Efficient Computing).

    The Research Software Directory aims to promote the impact, the exchange and re-use of best practices and to prevent fragmentation and duplication of research software.

    Contact

    eScience Research Engineer Jurriaan Spaaks, MSc

    Jurriaan’s main responsibility as an eScience engineer is the implementation of inverse modeling algorithms such as DREAM, SCEM-UA, and SODA on cluster computers while improving the usability of these algorithms in the cluster environment.

    Profile page
    Technical Lead Efficient Computing Dr. Jason Maassen

    Jason is interested in topics related to large scale distributed computing. At the Netherlands eScience Center he works on climate research projects.

    Profile page

    Efficient Computing

    Efficient Computing

    This expertise area includes

    • high-performance and distributed computing (e.g. GRID, Cloud)
    • heterogeneous computing
    • efficient algorithms
    • accelerator hardware (e.g. GPUs)
    • green computing

    Optimizing for hardware performance

    Whenever computer architectures and chip designs change significantly, as happens frequently, new algorithms are needed to exploit these developments for their performance benefits. 

    As the ambition of discipline scientists grows, in addition to the growth in data they analyze, the need to ensure the efficient use of computing resources also grows. 

    Code can be optimized for performance and run on the most appropriate machine, including accelerator hardware, with energy usage at a minimum.

    Example: Distributed & heterogeneous computing

    Despite the rapid growth in compute power, data growth and the ambition of domain scientists continues to grow faster. Compute power therefore remains at a premium requiring us to find newer and more efficient ways to utilize this component of the e-infrastructure. 

    When performing any large computation (for example simulations or signal processing) it should be remembered that some codes may run best on a supercomputer while others may run best on a cluster, for some models accelerators suchs as GPUs will be most efficient, and so on. 

    We develop distributed & heterogeneous computing methods that allow individual components of large parallel applications to be deployed on the resource having the best characteristics (performance, energy, financial) for that particular problem. The application of distributed & heterogeneous computing have been crucial in projects for point cloud processing, digital forensics, astrophysics and climate simulations.

    Contact

    Technical Lead Efficient Computing Dr. Jason Maassen

    Jason is interested in topics related to large scale distributed computing. At the Netherlands eScience Center he works on climate research projects.

    Profile page

    Who we are

    Who we are

    Hello,

    We are a dedicated team working at the interface of scientific disciplines and digital technology.

    We work directly with project teams and we divide our time between the eScience Center at Amsterdam Science Park and the sites of our project partners. 

    Our team of over 50 people is still growing, with new eScience Research Engineers providing novel skills to the team and experienced eScience Research Engineers disseminating our developments and approaches. 

    Optimized Data Handling

    Optimized Data Handling

    This expertise area includes 

    • real-time data analysis
    • database optimization
    • data-interoperability
    • combining structured and unstructured data

    Accessing and analyzing voluminous and rapidly generated data

    Scientific data are generated at increasing speed and abundance due to the miniaturization and parallelization of experiments, the deployment of (remote) sensors and the digitization of experimental practices. In the internet age, data can be shared as rapidly as they are generated, facilitating contemporary collaborative science and knowledge sharing.

    The development and application of methods to enable scientists to access and analyze voluminous and rapidly generated data, from radio telescopes to social media, are becoming universally important. 

    Example: Sensor networks

    One specific area of optimized data handling in which we develop expert knowledge is the management and analysis of sensor network systems. Around us is an increasingly complex set of ever more sophisticated, in many cases distributed, sensor networks monitoring any number of dynamic processes. 

    Sensor networks are used to monitor climate conditions, traffic flow, human physiology and health, emergency detection (fires etc), structural health of buildings, vehicle telemetry and machine process management. 

    At the same time, novel scientific instruments also generate increasingly large sensor data streams. The science to manage and analyse sensor networks is dependent on disciplines such as wireless communications, protocols, signal processing, embedded systems, streameddata analysis, distributed algorithms, and data management. 

    In projects such as Summer in the City and Beyond the Data Explosion we develop expertise and software to tackle the challenges of sensor network systems.

    Contact

    eScience Research Engineer Dr. Willem van Hage

    Willem´s main research topics in the past 10 years are semantics, augmented sense making, visual analytics, information integration, and text mining.

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    Related projects

    Technology

    Technology

    Technology

    We identified a series of core technologies that currently underpin our projects. Those technologies are likely to continue to be crucial in new projects for the foreseeable future. Maintaining at least operational expertise in these areas allows us to address the majority of discipline problems presented to us. 

    Contact

    Director of Technology Prof. Rob van Nieuwpoort

    Rob is responsible for eScience Technology development in all projects, project leader of our eScience technology platform, and manager of the eScience engineers.

    Profile page

    Let’s work together

    Let’s work together

    We are always interested in setting up new collaborations to achieve scientific impact!

    Collaborate with us

    Would you like eScience Research Engineers with specific skills to collaborate with you on your scientific project? We are interested to hear from you! Get in touch with us if you want to know more, or first check out our areas of expertise.

    Collaborations between academic partners and the eScience Center are primarily based on projects that address a pressing scientific problem and deliver innovative and reusable eScience tools and methodologies. Collaboration can be set up in three different ways:

    1. Open Calls for Proposals

    The majority of projects performed in collaboration with the eScience Center are based on a long-term consistent program of calls. Any senior researcher employed at a Dutch university or NWO/KNAW institute may apply for eScience Center funding as main applicant or as co-applicant. Some exceptions may exist, and we therefore refer to the details of each individual call.

    Check out our funding opportunities or get in touch with Dr. Frank J. Seinstra at f.seinstra@esciencecenter.nl.

    2. Partnering in Project Consortia / Proposals

    The eScience Center welcomes requests by research consortia and individual researchers to partner in project proposals in (inter)national funding programs (e.g. EU-H2020), provided that the eScience Center is eligible for funding. The eScience Center has ample experience in co-authoring project proposals, and already partners in a large number of projects granted by external funding bodies.

    Get in touch with Prof. Rob van Nieuwpoort at r.vannieuwpoort@esciencecenter.nl.

    3. Direct Collaboration

    In case you already have funding available, and would like to tap into the advanced expertise of the eScience Center, it is possible to request a direct collaboration with us. The general aims of such a direct collaboration would be similar to all our other projects (i.e.: address urgent scientific problem and deliver reusable eScience), but we are much interested to discuss with you how we can best achieve impact in your particular case.

    Get in touch with Dr. Aletta Debernardi at a.debernardi@esciencecenter.nl for more information.

    Meet & Greet

    What are the digital technological challenges in your research? And how can you work together with the Netherlands eScience Center in tackling these challenges? We are very happy to present some of our work that might be interesting for researchers at your institute! Get in touch with Lode Kulik at Tom Bakker at t.bakker@esciencecenter.nl if you want to know more.

    If you would like to receive updates on our activities, funding opportunities, job opportunities and/or events and trainings, then please subscribe to our newsletter below.

    Contact

    Science Policy Officer Dr. Tom Bakker

    Profile page
    Director Operations Dr. Aletta Debernardi

    As Director Operations she is responsible for all financial and legal matters at the eScience Center, the administrative processes around our project portfolio, housing and office IT, and human resource management.

    Profile page

    Young eScientist 2016

    Young eScientist 2016

    Young scientist wins award for using Artificial Intelligence in 3D printing body parts

    Maureen van Eijnatten (25) from VU University Medical Center has won the Young eScientist Award 2016. The prize aims to stimulate a young scientist demonstrating excellence in eScience: the development or application of digital technology to address scientific challenges. Van Eijnatten will receive 10.000 Euro to stimulate her research, as well as half a year of support by an eScience Engineer (experts in the application of digital technology in research). The prize will be used to undertake a joint research project.

    3D printing of human body parts

    Van Eijnatten’s research focuses on challenges faced in medical 3D printing of human body parts. Critical steps in medical 3D printing are image acquisition and image processing, even more than the printing process itself. Translating ‘human data’ into ‘virtual data’ is error-prone and subsequently results in voids in the 3D surface model of the patient. This can lead to misfitting 3D printed implants and life-threatening complications during and after surgery. Van Eijnatten hypothesizes that the application of deep learning algorithms leads to more accurate implants.

    The result of this research could open new avenues for individualized treatments all over the world and will allow surgeries to be performed more accurately, shorten the intervention period, minimize complications and reduce costs.

    About the Netherlands eScience Center

    The Netherlands eScience Center is the national hub for the development and application of domain overarching software and methods for the scientific community. In support of this goal the eScience Center funds and participates in multidisciplinary projects, with academia and industry, with optimized data-handling, efficient computing and big-data analytics at their core. The eScience Center is a joint initiative of the Dutch national research council (NWO) and the Dutch organization for ICT in education and research (SURF).

    More information about the Young eScientist Award: https://www.esciencecenter.nl/young-escientist-award or contact r.vannnieuwpoort@esciencecenter.nl.

    Image: Elodie Burrillon / HUCOPIX
    From left to right: Maureen van Eijnatten (VU Medical Center Amsterdam) & Prof. Rob van Nieuwpoort (Netherlands eScience Center)

    Contact

    Director of Technology Prof. Rob van Nieuwpoort

    Rob is responsible for eScience Technology development in all projects, project leader of our eScience technology platform, and manager of the eScience engineers.

    Profile page

    2016 ADAH Project Call

    2016 ADAH Project Call

    This call is closed

    Accelerating Scientific Discovery in the Arts and Humanities

    CLARIAH and the Netherlands eScience Center invite researchers whose main area of expertise is in the Arts and Humanities to submit a proposal in this call.

    Purpose

    The purpose of this Call for Proposals is to enable researchers working in the Arts and Humanities to address compute-intensive and/or data-driven problems within their research and to contribute to a generic and sustainable eScience infrastructure.

    When to apply

    The deadline for the mandatory proposal abstract is  15 November 2016, 14:00 CET and the deadline for full proposals is 16 December 2016, 14:00 CET.

    Download

    Submit your abstract

    The deadline for submitting the mandatory proposal abstracts has passed (see above).

    If you have any questions for CLARIAH or the eScience Center regarding your project proposal, please send an email to adah@esciencecenter.nl

    Information Event

    On 1 November 2016 we organized an information event to allow all interested applicants to get acquainted with the approach and structure of the Netherlands eScience Center, the role of the eScience Research Engineers, with CLARIAH and with the technologies being implemented and applied by the eScience Center and CLARIAH. View all presentations and discussions of the event by clicking the video below (five parts).

    Agenda

    13:30 – 13:50 Introduction NLeSC (Wilco Hazeleger) - Download presentation slides
    13:50 – 14:10 Introduction CLARIAH (Jan Odijk) - Download presentation slides
    14:10 – 14:30 The eStep technology platform (Rob van Nieuwpoort) - Download presentation slides
    14:30 – 15:00 The joint NLeSC-CLARIAH call (Wilco Hazeleger)
    15:00 – 15:30 Example of an eScience Humanities project (eScience Research Engineer) - Download presentation slides
    15:30 – 16:30 Questions

    Contact

    Director Prof. Wilco Hazeleger

    Wilco serves as director of the Netherlands eScience Center, connecting ICT (big data, computational science) with applications in scientific domains. Wilco also has a chair in Climate Dynamics at Wageningen University.

    Profile page

    Software Carpentry Information Day

    Software Carpentry Information Day

    When and where
    SURF offices, Hoog Catharijne, Utrecht (Room 3.1)
    2 September 2016
    09.30 - 12.30

    Join




    About this event
    Software Carpentry is about teaching basic lab skills for research computing. Since 1998, Software Carpentry has been teaching researchers in science, engineering, medicine, and related disciplines like life sciences and humanities the computing skills they need to get more done in less time and with less pain. Software Carpentry is sustaining by training trainers, and freely reusable lesson materials.

    Teaching basic lab skills for research computing

    At the eScience Center we are committed to helping scientists in developing and improving the computational skills required to carry out their research. This is why we are actively involved in organizing Software Carpentry courses.

    We would like to invite you to the Software Carpentry Information Day: Jonah Duckles, executive director of Software Carpentry Foundation, will give a presentation highlighting the importance of software carpentry and the benefits it brings to the scientific community in general. We will also have a Q&A session letting participants to ask questions and get a better understanding of how software carpentry could benefit them and their research. The event is also an opportunity to define the demand for Software Carpentry workshops and necessary training capacity in the Netherlands.



    Image: Workshop @ SURF on Essential Skills in Data-Intensive Research - January 2016

    Intended audience
    This is aimed at researchers who are looking at developing the ICT skills of their research group

    Program
    09:30 – 10:00 Welcome with coffee
    10:00 – 11:00 Software Carpentry presentation by Jonah Duckles
    11:00 – 11:15 Coffee Break
    11:15 – 12:00 Q&A session
    12:00 – 12:30 Lunch

    Free to attend but registration required
    We will start with coffee and end the meeting with lunch. The Information Day is free to attend but registration is required. Please register below.

    Register

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    Contact

    eScience Research Engineer Dr. Carlos Martinez-Ortiz

    Carlos works as an eScience engineer on various Digital Humanities projects.

    Profile page

    Young eScientist Award 2017

    Young eScientist Award 2017

    This call is closed for 2017

    Are you a young and ambitious researcher? Are you trying to solve challenging research questions in your domain? And are you using data-driven or compute-intensive methods? Then you might be the Young eScientist 2017!

    Win 50,000 EUR worth of eScience expertise for your novel research idea!

    The Netherlands eScience Center awards €50,000 worth of expertise to a novel eScience idea. Together with the eScience Center’s experts you will formulate your idea into a full project proposal. Submit your idea before 1st September 2017!

    The grand societal challenges of the coming years, such as climate change, increased population size, resource scarcity and urbanization will require innovative scientific and technological interventions. Researchers are more and more required to rapidly develop ICT skills necessary to answer their ambitious research questions.

    The prospect of developing the skills needed to engage increasingly diverse and complex digital technologies is daunting. The Netherlands eScience Center works together with discipline focused scientists to ensure that state-of-the-art computing and data-science is developed and applied in fields such as the Humanities & Social Sciences, Environment & Sustainability, Life Sciences & eHealth, and Physics & Beyond.

    The prize will be awarded at the National eScience Symposium 2017 in the Amsterdam ArenA on 12th October 2017.

    Prize

    • 40K euro in kind provision of eScience Research Engineer support to undertake project
    • 10K euro personal sponsorship for travel or consumables

    Criteria

    The prize will be awarded to a young scientist based on a combination of:

    • demonstrated previous success in the development or application of data-driven or compute-intensive research within a scientific domain or multiple domains (50%)
      and
    • the quality of a new project idea (50%)

    Profile of Recipient

    • Currently and for the duration of the project employed by a Dutch university or research institute which is affiliated with NWO or KNAW (eScience Center employees are excluded)
    • Current PhD student or researcher who received theirPhD less than 3 years ago (based on day of award presentation)
    • Demonstrated excellence in the development or use of digital technology or data science within a research domain (incl. Environment & Sustainability, Life Sciences & eHealth, Humanities & Social Sciences or Physics & Beyond)

    Project Idea

    Candidates will submit an idea for a project (not the full proposal) to be judged by the award committee. The successful candidate will work with the eScience Center’s staff to formulate a full proposal. If data is required for the project idea, the data should be available at the start of the project. The full proposal will be formulated between the National eScience Symposium 2017 (12th October 2017) and 1st December 2017.

    Submitting Proposals

    Submission only requires potential applicants to complete the short online procedure before 1st September 2017.

    Submit here

    General terms and conditions of the eScience Center’s projects can be found here (Dutch). The eScience Center’s policy towards publishing, licensing and intellectual property can be found here.

    Header image: Map of scientific collaboration between researchers by Olivier H. Beauchesne

    Contact

    Director of Technology Prof. Rob van Nieuwpoort

    Rob is responsible for eScience Technology development in all projects, project leader of our eScience technology platform, and manager of the eScience engineers.

    Profile page

    Related projects

    eScience Center hosts Mozilla Science Lab Global Sprint

    eScience Center hosts Mozilla Science Lab Global Sprint

    The Netherlands eScience Center will be hosting the Mozilla Science Lab Global Sprint at Amsterdam Science Park.

    The Sprint will be held on 2 & 3 June at around 30 locations around the world. The Mozilla Science Lab is a community of researchers, developers, and librarians making research open and accessible and empowering open science leaders through fellowships, mentorship, and project-based learning. This two-day sprint event brings together researchers, coders, librarians and the public from around the globe to hack on open science and open data projects in their communities. This year, we have four tracks anyone can contribute to: tools, citizen science, open educational resources and open data.

    We'd like to invite you to join us!

    2 & 3 June
    9:00 - 17:00
    Netherlands eScience Center
    Science Park 140
    1098 XG Amsterdam

    Absolutely everyone is welcome to join, no experience necessary!

    If you're interested in attending, please register at https://ti.to/mozilla-science/gs2016-amsterdam

    If you have any questions about our local event in Amsterdam, feel free to get in touch!

    We hope you'll join us for the sprint!

    NLeSC-Lorentz Workshop 2017

    NLeSC-Lorentz Workshop 2017

    Please not that this call has closed and will reopen in 2017

    NLeSC and the Lorentz Center are looking for researchers who want to organize the first annual NLeSCLorentz Workshop, to be held at Lorentz Center@Snellius, Leiden, the Netherlands. 

    The NLeSC-Lorentz program plans to host a leading-edge workshop on the application of digitally enhanced research (efficient utilization of data, software and e-infrastructure). The workshop topic should bring together researchers from the academic scientific community with those from the public/private sector.

    What we seek

    • an innovative scientific program, that takes us beyond current boundaries
    • an open and interactive format, with few lectures
    • at least one scientific organizer from the academic sector
    • at least one scientific organizer from the public/ private sector

    What we offer

    • a 5-day workshop for up to 25 people in the first half of 2017
    • travel and accommodation reimbursements for all participants
    • no registration fees or other organizational costs
    • a professional support organization, under the philosophy “You do the science, we do the rest” 

    Procedure

    • a 1-page expression of interest by 15 April 2016
    • a full application by 6 June 2016
    • final decision end of June 2016
    • submit applications to: proposal@lorentzcenter.nl

    Information

    • Wilco Hazeleger, director NLeSC, w.hazeleger@esciencecenter.nl
    • Arjen Doelman, director Lorentz Center, doelman@lorentzcenter.nl
    • Henriette Jensenius, scientific manager Lorentz Center, jensenius@lorentzcenter.nl

    View poster

    2016 ASDI Project Call

    2016 ASDI Project Call

    This call has closed and will open again in the first half of 2017

    Accelerating Scientific Discovery (ASDI)

    The Netherlands eScience Center (NLeSC) invites researchers in the domains of Environment & Sustainability, Humanities & Social Sciences, Life Sciences & eHealth, and Physics & Beyond to apply for funding.

    Purpose

    The purpose of this Call for Proposals is to enable domain scientists, working in application fields of Environment & Sustainability, Humanities & Social Sciences, Life Sciences & eHealth, or Physics & Beyond, to address compute-intensive and/or data-driven problems within their research.

    Successful proposals will pursue new scientific domain challenges and enhance and accelerate the process of scientific discovery within the field of application. To achieve this, the proposals will be characterized by the usage, adaptation, and integration of eScience methods and tools including software for optimized data handling, Big Data analytics, and efficient computing.

    When to apply

    The deadline for the submission of pre-proposals is Tuesday 17 May, 14:00 CEST. 
    The deadline for submission of full proposals is Tuesday 30 August 14:00 CEST.

    Submission of a full proposal is possible only after participation in the pre-proposal round.

    Information Event

    To allow all interested applicants to get acquainted with the approach and structure of the Netherlands eScience Center, the role of the eScience Research Engineers, and with the technologies being implemented and applied by NLeSC, an information event was organized at NLeSC on 14 April 2016.

    Click here to download the presentation of Prof. Dr. Wilco Hazeleger and here to download the presentation of Dr. Rob van Nieuwpoort.

    Download

    Submit your proposal

    Please submit your proposal using NWO's electronic application system IRIS:

    Submit here

    In case you experience problems submitting your proposal, please also send to asdi-call@esciencecenter.nl.

    This call is processed by NWO for the Netherlands eScience Center (NLeSC). The NLeSC Board decides in granting and rejection, and all grants will be awarded by NLeSC.

    2016 DTEC Project Call

    2016 DTEC Project Call

    This call has closed and will open again in the first half of 2017

    Joint eScience and Data Science across Top Sectors

    The Netherlands eScience Center (NLeSC), Netherlands Organisation for Scientific Research Physical Sciences (NWO), and Dutch Digital Delta invite technology-oriented researchers to apply for funding and support for researching disruptive eScience technologies.

    Purpose

    This call for proposals aims at research and development of disruptive solutions associated with big data handling, big data analytics and related computational methods in order to be able to address novel cross-sectoral scientific challenges described in the COMMIT2DATA White Paper.

    A successful project should address (a) domain challenge(s) from one or more sectors using novel digital technologies and data science methods that are studied and developed within the project.

    When to apply

    The deadline for the submission of pre-proposals is Tuesday 17 May, 14:00 CEST.
    The deadline for submission of full proposals is Tuesday 30 August 14:00 CEST.

    Submission of a full proposal is possible only after participation in the pre-proposal round.

    Information Event

    To allow all interested applicants to get acquainted with the approach and structure of the Netherlands eScience Center, the role of the eScience Research Engineers, and with the technologies being implemented and applied by NLeSC, an information event was organized at NLeSC on 12 April 2016.

    Click here to download the presentation of Prof. Dr. Wilco Hazeleger and here to download the presentation of Dr. Rob van Nieuwpoort.

    Download

    Submit your proposal

    Please submit your proposal using NWO's electronic application system IRIS:

    Submit here


    In case you experience problems submitting your proposal, please also send to dtec-call@esciencecenter.nl.

    Uitnodiging

    Uitnodiging

    Voorbereiding NWA Routeworkshop Big Data

    Big Data Verantwoord Gebruiken: zoeken naar patronen in grote gegevensbestanden

    2 maart 2016
    9:30 – 15:00 uur
    NH Hotel
    Prinses Margrietplantsoen 100
    Den Haag

    Als u een email met uitnodiging hebt ontvangen voor de voorbereidende workshop voor de NWA routeworkshop 'Big Data Verantwoord Gebruiken' kunt u zich hieronder aanmelden.

    Aanmelden

    * indicates required







     

    Aanmelding bevestigen

    Na het versturen van uw gegevens ontvangt u een email om uw aanmelding te bevestigen.

    Vragen?

    Voor vragen over uw aanmelding kunt u contact opnemen met Lode Kulik l.kulik@esciencecenter.nl

    Contact

    Director Prof. Wilco Hazeleger

    Wilco serves as director of the Netherlands eScience Center, connecting ICT (big data, computational science) with applications in scientific domains. Wilco also has a chair in Climate Dynamics at Wageningen University.

    Profile page

    NWA Routeworkshop

    NWA Routeworkshop

    Publieke consultatie 

    Van 6 tot en met 10 mei heeft u online kunnen reageren op de uitkomsten van deze routeworkshop. 

    Big data verantwoord gebruiken: Zoeken naar patronen in grote gegevensbestanden

    Drie jaar geleden noemde Harvard Business Review data scientists de “sexiest job of the 21st century”. De revolutie die het meten, opslaan en analyseren van data teweeg brengt, raakt alle sectoren van onze maatschappij, van bedrijven tot overheid en wetenschap. Nederland staat voor de uitdaging vaart te maken met het toepassen van, en het ontwikkelen van kennis en opleidingen op dit gebied. Terecht stelt de Nationale Wetenschapsagenda big data dan ook voor als één van de centrale thema’s, een zogenaamde “route”. 

    Waar het onderzoek en innovatie met big data precies over moet gaan, wordt op 5 april bepaald in een routeworkshop met vertegenwoordigers vanuit alle sectoren. Deze workshop is de ideale gelegenheid om input te leveren aan de big data agenda voor Nederland. Tevens is het een ideale mogelijkheid om te netwerken met big data onderzoekers en invloed uit te oefenen op de gedegen kennis en opleiding van de Nederlandse data scientist van morgen.

    Vervolg Nationale Wetenschapsagenda

    Alle vragen van de Wetenschapsagenda zijn ondergebracht in 16 exemplarische routes. In routeworkshops worden de vragen en het belang ervan voor Nederland verder uitgewerkt. Routeworkshops zijn gericht op deelnemers vanuit de wetenschap, maatschappelijke organisaties, overheden en bedrijfsleven. De workshops zijn gericht op verdere verdieping, vernieuwing en op het vinden van verbindingen tussen vragen en kennisagenda’s.

    De route ‘Big Data Verantwoord Gebruiken: zoeken naar patronen in grote gegevensbestanden’ verbindt veel wetenschappelijke disciplines en kent veel toepassingen en kansen voor Nederland. 

    Routeworkshop

    5 april werd een workshop gehouden in het Trippenhuis (KNAW) om deze route verder uit te werken. Tijdens de workshop zijn de NWA vragen die gekoppeld zijn aan deze route verdiept en aangevuld. Tevens zijn verbindende elementen tussen vragen uit verschillende domeinen geïdentificeerd. 

    Publieke consultatie

    De input van de deelnemers aan de routeworkshop zal worden samengevat in een aantal game changers die begin mei op deze pagina beschikbaar zullen zijn voor openbare consultatie, met de mogelijkheid te reageren via een web survey. 

    Organiserend comité

    Wilco Hazeleger (Netherlands eScience Center)
    Inald Lagendijk (Topteam ICT)
    José van Dijck (president KNAW)
    Erik van de Linde (KNAW)
    Henk-Jan Vink (TNO)
    Wim de Haas (NWA) 

    Contact

    Director Prof. Wilco Hazeleger

    Wilco serves as director of the Netherlands eScience Center, connecting ICT (big data, computational science) with applications in scientific domains. Wilco also has a chair in Climate Dynamics at Wageningen University.

    Profile page

    Afmelding

    Afmelding

    U bent succesvol afgemeld voor deze workshop

    Wim Otte Young eScientist of the Year 2015

    Wim Otte Young eScientist of the Year 2015

    The Netherlands eScience Center (NLeSC) is pleased to announce Dr. Wim Otte as the Young eScientist of the Year 2015. Wim Otte, from Prof. R.M. Dijkhuizen's group at the University Medical Center Utrecht has an excellent, eScience-related track record with numerous high-quality publications and scientific results. This contribution resulted in Wim being awarded the prestigious NWO VENI grant in 2015.

    In addition to track record, applicants were asked to propose an interesting scientific challenge to undertake in collaboration with NLeSC. Together with the NLeSC team Wim Otte will research how Brain Computer Interfaces and wireless headsets that currently revolutionize the PC game industry can be used in epilepsy diagnosis.

    Young eScientist Award

    The Young eScientist Award aims to award a young scientist demonstrating excellence in the development or application of eScience approaches to address scientific challenges. The award is judged on both track record solving research challenges using eScience approaches and the candidates idea for a novel NLeSC path-finding project. The prize grants 40K euro in kind provision of eScience Research Engineer support to undertake a research project and 10K euro personal sponsorship for travel or consumables.

    The Science of Big-Data Analytics & Visualization

    The Science of Big-Data Analytics & Visualization

    On 23 November 2015 in the Jaarbeurs in Utrecht we will organize a symposium around the theme of data visualization. More information and the program for the day will follow soon.

    Register for this event

    * indicates required






     

    Contact

    Senior Secretary & Communications Assistant Sacha van Breugel

    Sacha is a Senior Secretary at the Netherlands eScience Center. She also acts as communications assistant and is responsible for the organization of eScience events.

    Profile page

    #nlesc15

    #nlesc15

    Where to keep cool during this week’s hot summer days?

    Where to keep cool during this week’s hot summer days?

    Weather forecasts are predicting temperatures of over 30 degrees Celsius in the Netherlands for the coming days. But how warm will it be on your appartments’ balcony in Amsterdam, or at your favorite cafe’s terrace in Wageningen? The Summer in the City project is developing an app that attempts to show you weather predictions for your neighborhood. 

    Traditional weather forecasts, although reliable enough to plan an outdoor trip, predict average temperatures in rural areas of several kilometers by size. In cities temperatures may be several degrees Celsius higher due to lots of activity and lots of people, and building materials and structures that insulate or hold the heat. The city doesn’t release it’s heat as fast as the surrounding country side which may, for example, affect the quality of your sleep or your work productivity on hot summer days. This is called the urban heat island effect.

    Above: The Summer in the City forecasting application (beta). How much warmer is your street? The map shows the urban heat island effect (UHI). It should be used in combination with a traditional temperature forecast to get an estimation of the actual temperature in your neighborhood. Take the temperature forecast and add the UHI50P for an average day, and the UHI95P for a heatwave. When hovering over the map, a pop-up also shows the population count, and the area fraction of urbanization (houses, streets), vegetation (trees, grass, gardens, parks), and water.

    A human thermal comfort forecast app

    To make weather predictions on street level or to say something about human thermal comfort, is challenging. It requires computer simulations on very high spatial and temporal scales. The Summer in the City application (above) shows the difference between the traditional weather forecast and the actual temperature on street level. This helps you decide where to keep cool on hot summer days. It could also assist governmental agencies in foreseeing health crises during heatwaves; forecasting human thermal comfort on street level is novel and will be of added value for public health and society in general.

    Trends in human thermal comfort in European cities

    The Summer in the City project, in which the above app is being developed, has led to a new project called ERA-URBAN. In this project data from long-term archives is being used to explore trends in, among other things, human thermal comfort in European cities. In a rapidly urbanizing world, where 67% of the population is expected to live in cities by 2050, keeping those cities liveable, healthy and productive should be high on the agenda.

    You can read more about our projects dealing urban heat island effects by clicking on the related projects below.

    These projects are collaborations with the Meteorology and Air Quality group at Wageningen University.

    Related projects

    Young eScientist Award

    Young eScientist Award

    Wim Otte Young eScientist of the Year 2015

    The Netherlands eScience Center (NLeSC) is pleased to announce Dr. Wim Otte as the Young eScientist of the Year 2015. Wim Otte, from Prof. R.M. Dijkhuizen's group at the University Medical Center Utrecht has an excellent, eScience-related track record with numerous high-quality publications and scientific results. This contribution resulted in Wim being awarded the prestigious NWO VENI grant in 2015.

    In addition to track record, applicants were asked to propose an interesting scientific challenge to undertake in collaboration with NLeSC. Together with the NLeSC team Wim Otte will research how Brain Computer Interfaces and wireless headsets that currently revolutionize the PC game industry can be used in epilepsy diagnosis.


    From left to right: Tony Hey (University of Washington), Wim Otte (University Medical Center Utrecht), Frank Seinstra (Netherlands eScience Center)

    Young eScientist Award

    The Young eScientist Award aims to award a young scientist demonstrating excellence in the development or application of eScience approaches to address scientific challenges. The award is judged on both track record solving research challenges using eScience approaches and the candidates idea for a novel NLeSC path-finding project. The prize grants 40K euro in kind provision of eScience Research Engineer support to undertake a research project and 10K euro personal sponsorship for travel or consumables.

    Contact

    Director eScience Program Dr. Frank Seinstra

    Frank supervises the development, implementation, and research of innovative eScience solutions in multidisciplinary research projects. He is a strong advocate of applying (and re-using) the latest results of state-of-the-art ICT research in large-scale compute- and data-intensive problems in various scientific research areas.

    Profile page

    Former Team Members

    Former Team Members

    Directors

    Prof. Jacob de Vlieg
    Dr. René van Schaik (Director a.i.)

    Management Team

    Dr. Scott Lusher

    eScience Research Engineers

    Rita Azevedo MSc
    Arie Baak
    Drs. Ing. Piter de Boer
    Dr. Joris Borgdorff
    Drs. Lars Buitinck
    Dr. Elenna Dugundji
    Dr. Rob Hooft
    Dr. Milena Ivanova
    Dr. Wim de Leeuw
    Dr. Parisa Noorishad
    Dr. Han Rauwerda
    Ing. Ruud Ross
    Ir. Marijn Sanders
    Dr. Ir. Erik Tjong-Kim-Sang

    Support

    Mieke van den Berg (Communications Advisor)
    Lilian Conrad (Office Manager)
    Drs. Leontien Hulleman (Human Resource Advisor)
    Marieke van der Meer (Senior Secretary)

    Board of Directors

    Prof. Jos Engelen
    Drs. Hans de Groene
    Dr. Wim Liebrand
    Ing. Amandus Lundqvist

    eScience Advisory Committee

    Prof. Bert de Brock
    Prof. Arjen Doelman
    Prof. Robert Glen
    Dr. Arie Kaizer

    eScience Integrators

    Prof. Henri Bal
    Prof. Henk Dijkstra
    Dr. Bernard de Geus
    Dr. Scott Lusher
    Prof. Paul Tiesinga
    Dr. Marco de Vos

    3rd National eScience Symposium

    3rd National eScience Symposium

    Accelerating Scientific Discovery

    Amsterdam ArenA 
    Thursday, October 8th, 2015
    09:30-17:30

    Free to attend (Registration required, see below)

    What

    The grand societal challenges of the coming years, such as climate change, increased population size and aging, resource scarcity and increased urbanization require innovative scientific and technological interventions. One of the most important single factors in addressing these goals and revolutionizing scientific practice will be increased capacity to harness the power of computing technology. The 3rd National eScience Symposium will introduce scientists and researchers from all disciplines to digital technologies relevant to their field. The symposium will showcase world-class data-driven and compute-intensive research.

    Who

    The symposium will be of interest to researchers (from academia and industry), students, data scientists, scientific administrators, CIOs and CTOs. It will be relevant to chemists, physicists, biologists, social scientists, computer scientists, mathematicians and more.

    Keynotes

    • Prof. José van Dijck (tentative) is the newly appointed president of The Royal Netherlands Academy of Arts and Sciences (KNAW). She is also a new media author and professor of Comparative Media Studies and former dean of the University of Amsterdam. She is the author of the recent books, Mediated Memory in the Digital Ageand The Culture of Connectivity.
    • Prof. Leonard Smith is director of the Center for the Analysis of Time Series at the LSE. In recognition of his contributions to mathematically-coherent user-relevant developments in meteorology, the Royal Meteorological Society awarded Professor Smith its Fitzroy Prize in 2003. Professor Smith is currently a member of the ASA Advisory Committee on Climate Change Policy (ACCCP) and a member of the Smith Institute's Scientific Committee.
    • Prof. Tony Hey After a long and distinguished career in physics and computing, in both academia and industry, Prof. Hey led the UK's e-Science Programme from 2001 to 2005. He later joined Microsoft as corporate vice-president of technical computing before becoming corporate vice president of external research, and eventually corporate vice president of Microsoft Research Connections.

    Tentative Track Titles

    • Life Sciences & eHealth 
      in partnership with the Dutch Techcenter for Life Sciences (DTL)
    • Environment & Sustainability 
      in partnership with the Royal Netherlands Meteorological Institute (KNMI)
    • Humanities & Social Sciences 
      in partnership with the eHumanities Group of the Royal Netherlands Academy of Arts and Sciences (KNAW)
    • Physics & Beyond 
      in partnership with the National Institute for Subatomic Physics (NIKHEF)
    • Computer & Data Sciences
      in partnership with ICT research Platform Netherlands (IPN)

    Registration

    You can already register for this free to attend event by using the registration form below. Coffee, lunch and refreshments will be provided.

    Register for this event

    * indicates required






    All tracks are freely accessible, but we would like to ask you to indicate your preferred track.*

     

    Register here for the 3rd National eScience Symposium. All tracks are freely accessible, but we would like to ask you to indicate your preferred track.

    Contact

    Senior Secretary & Communications Assistant Sacha van Breugel

    Sacha is a Senior Secretary at the Netherlands eScience Center. She also acts as communications assistant and is responsible for the organization of eScience events.

    Profile page

    Applying for Path-Finding Project Funding

    Applying for Path-Finding Project Funding

    Path-Finding Projects

    In addition to the Large Projects, NLeSC has facility to sponsor smaller eScience initiatives. One of such opportunities is referred to as “Path-Finding Projects”.

    Path-Finding Projects are intended to provide the opportunity to address novel data or computationally intensive scientific challenges. In this way they can serve as a pilot for future research projects or investigate the potential to initiate full projects.

    NLeSC can award typically 5 to 6 Path-Finding Projects each year. Path-Finding Projects are supported via the 100% in kind provision of eScience Research Engineers employed by NLeSC. 

    Call for Submissions Open

    Next deadline for submission of Path-Finding Project proposals is November 1st 2016.

    A Path-Finding Project proposal can be submitted at any time, but will be reviewed only after the earliest fixed deadline in the year: May 1st or November 1st. It is, therefore, in competition with other Path-Finding Project proposals submitted before the same deadline.

    Path-Finding Projects will be evaluated by the NLeSC Executive Committee on the following criteria:

    • Scientific quality, novelty and impact (50%, see section 6a)
    • eScience technology state-of-the-art (25%; see section 6b)
    • Potential for technological innovation, impact of new technology on future research and lateral impact (between domains) (25%; see section 6c)

    To align with NLeSC’s aims and technological capabilities, Path-Finding Projects should contribute to eStep, the eScience Technology Platform. To this end, Path-Finding Projects preferably incorporate elements of at least one, but possibly more, of the key technological competencies defined by NLeSC:

    • Optimized Data Handling: incl. combining structured and unstructured data, real-time data analysis, database optimization, data-interoperability;
    • Big Data Analytics: incl. data interpretation, data exploration, analysis, data mining, machine learning, text analysis, and visualization;
    • Efficient Computing:incl. high-performance and distributed computing, heterogeneous computing, efficient algorithm design, accelerated hardware (e.g. Graphics Processing Units).

    Examples of previous Path-Finding Projects are shown below.

    Submitting Proposals

    Before submitting, it is advised to contact NLeSC first to discuss the aims and direction of your project idea. Also, for more information on the procedures and content of Path-Finding Projects, please send an email to pathfinder@esciencecenter.nl .

    Submission of a Path-Finding Project proposal requires sending the completed submission document to pathfinder@esciencecenter.nl. You can download the submission document here: submission document.

    General terms and conditions of NLeSC projects can be found here (Dutch). The NLeSC policy towards publishing, licensing and intellectual property can be found here. Note that this will include Open Access Policy as defined by NWO.

    Submission will be (temporarily) closed in case the budget for Path-Finding Projects has been exhausted.

    Contact

    Director of Technology Prof. Rob van Nieuwpoort

    Rob is responsible for eScience Technology development in all projects, project leader of our eScience technology platform, and manager of the eScience engineers.

    Profile page

    Related projects

    eScience Research Engineer

    eScience Research Engineer

    What is an eScience Research Engineer?

    eScience Research Engineers are digital scientists able to work at the interface of a scientific discipline and enhanced ICT. eScience Research Engineers are (mostly) scientists that hold a PhD degree, and have a background in developing and applying scientific ICT within a scientific domain. They have an interest in sharing their knowledge and experience outside their domains.

    As an eScience Research Engineer you will operate in a scientific environment. You will be responsible for the translation of scientific questions into solutions that effectively apply advanced ICT technologies and for promoting the use of eScience technologies. You will develop methodologies, applications, and high quality software and ensure that these can be used easily by scientists within a coordinated eScience infrastructure. You will work closely together with other scientists, both within the Netherlands eScience Center and with its partner organizations. 

    Translating scientific questions into solutions that effectively apply advanced ICT technologies 

    eScience Research Engineers work as a close team, creatively combining and sharing knowledge between projects. It is likely that you will divide your time between working at the center at Amsterdam Science Park, and at a university or research institute participating in collaborative projects.

    We are recruiting eScience Research Engineers at various levels of ability. All eScience Research Engineers work closely with scientists from various disciplines. Experience in working in an academic or related environment is required.

    For current vacancies, look at our careers page.

    Contact

    Director of Technology Prof. Rob van Nieuwpoort

    Rob is responsible for eScience Technology development in all projects, project leader of our eScience technology platform, and manager of the eScience engineers.

    Profile page

    Enabling Scientific Breakthroughs

    Enabling Scientific Breakthroughs

    If you are not automatically redirected please click here.

    Key competencies

    Key competencies

    • Optimized Data Handling
      Real-time data analysis, database optimization, data-interoperability, combining structured and unstructured data.

      Scientific data is generated at increasing speed due to the miniaturization and parallelization of experiments, the deployment of remote sensors and the use of Laboratory Information Management Systems to integrate experimental tools to the internet and associated databases. In the internet age, data is shared as rapidly as it is generated, facilitating contemporary collaborative science and knowledge sharing. Good management of data is critical to ensure reproducibility of earlier work, to develop larger populations of similar data to improve statistical analysis and for enabling data-driven research in the future.
    • Big Data Analytics
      Data interpretation (data exploration, analysis, data mining, machine learning, text analysis, statistics, and visualization).

      Efficient management of data alone does not result in new breakthroughs. Imaginative and inquisitive scientists are still required to find the hidden patterns and relationships contained in, but also obscured by, large amounts of disparate data. Modern scientists must be able to recognise sources of relevant information, prepare raw data, use statistical tools, extract meaningful information, interpret results, recognise potential problems and make visualizations to communicate their findings. With the application of statistics and applied maths at its core, the used of data-analytics and visualisation are a generic requirement for all scientists.
    • Efficient Computing
      High-performance and distributed computing (e.g. GRID, Cloud), heterogeneous computing, efficient algorithms, accelerated hardware (e.g. GPUs), and green computing.

      For the majority of the digital-era, computers have grown rapidly in terms of computational power and in available memory. More recently that growth has been outstripped by the growth in data to be stored and analyzed as well as the ambitions of scientists to undertake increasingly complex simulations and calculations. This new pressure on computational resources, as well as the need to reduce energy consumption, requires scientists to undertake more efficient computing. This can be achieved by the improvement of algorithmic resource usage, the correct selection of heterogeneous hardware (including accelerated hardware) and the combination of disparate compute resources as needed.

    You can find more information in the NLeSC strategy 2015-2020.

    Funding

    Funding

    Expertise & Cash

    The eScience Center receives an annual budget from NWO and SURF, the majority of which is provided to Dutch academics as subsidy in the form of cash and the in kind provision of eScience Research Engineers. The awarding of both cash and expertise makes the eScience Center unique, balancing the role of both funder and collaborator. 

    Any aspect of eScience and the utilization of e-infrastructure to address a scientific challenge are potentially fundable.

    Current funding opportunities

    About our project funding

    Collaborations between academic partners and the eScience Center will be based primarily on a long-term consistent programme of calls. All funded projects should address a pressing scientific problem and capable of delivering innovative reusable eScience to the nation’s e-infrastructure and beyond. 

    Our collaborative projects should have the potential to deliver scientific excellence in terms of scientific breakthroughs and in the realization of new eScience methodologies or integration of existing methodologies. We aim for high scientific standards and will contribute to scientific publications in high-impact scientific journals and conferences through collaboration with domain scientists and development of our core technologies. 

    Funded projects are supported to the value of €500K (combined cash and in kind provision of eScience Research Engineers) and result from annual peer-reviewed project calls.

    Relevant Documentation

    Here you can find the Intellectual Property policy and Bijzondere voorwaarden for Netherlands eScience Center projects

    Annual Young eScientist Award

    Each year we sponsor and coordinate an eScience prize to be awarded to a young scientist demonstrating excellence in the development or application of eScience approaches to address scientific challenges. The award will be judged on both track record solving domain challenges using eScience approaches and the candidates idea for a novel eScience Center project.

    Read here about the Young eScientist of the Year 2016.

    Read here about the Young eScientist of the Year 2015.

    Who can apply?

    In most cases, any senior researcher employed at a Dutch university or NWO- / KNAW-institute may apply for eScience Center funding as main applicant or as co-applicant. Some exceptions may exist and we therefore refer you to the individual details of each call.

    Sign up to receive new funding opportunities


     

    Contact

    Director eScience Program Dr. Frank Seinstra

    Frank supervises the development, implementation, and research of innovative eScience solutions in multidisciplinary research projects. He is a strong advocate of applying (and re-using) the latest results of state-of-the-art ICT research in large-scale compute- and data-intensive problems in various scientific research areas.

    Profile page

    Coordinating eScience

    Coordinating eScience

    Websites

    Visit the official ePLAN website at  eScience-Platform.nl

    Visit the official PLAN-E website at  plan-europe.eu

    The rapid growth of data and computing initiatives risks unnecessary fragmentation and duplication. NLeSC works with many partner organizations, nationally and internationally, to identify common challenges such as training and career support for eScientists, as well as providing thought leadership on issues such as data-stewardship and software sustainability.

    ePLAN

    Platform of eScience & Data Research Groups of The Netherlands

    NLeSC welcomes the development of additional groups and initiatives around the country that share its goal to exploit and develop data-driven and compute-intensive approaches in scientific research. The development of such groups demonstrates a growing reliance on eScience and its recognition nationally. As the national eScience center, there is a role for NLeSC in ensuring these initiatives are in close contact with one another, are sharing information, preventing duplication and fragmentation and working together for a common good. 

    NLeSC should also provide thought leadership in areas related to eScience development and application

    A central component of that role is ePLAN, the Platform of eScience & Data Research Groups of The Netherlands which NLeSC coordinates. Via ePLAN and NLeSC’s wider collaborative network (integrators, project leaders, engineers and eSAC), NLeSC should also provide thought leadership in areas related to eScience development and application such as data-stewardship and software sustainability for example. Through ePLAN, eScience activities in the Netherlands can have a single voice towards, for instance, SURF and other public and private parties.

    Visit the official ePLAN website at  eScience-Platform.nl

    PLAN-E

    Pan European Organization of National eScience Centers

    NLeSC’s ecosystem of partners and collaborators increasingly includes organizations across Europe and beyond. As national center, NLeSC facilitates the development of close connections with European partners resulting in benefits across the eScience landscape. NLeSC is leading the development of a pan European organization of national eScience centers called PLAN-E.

    In addition, NLeSC activities are aligned with research data initiatives such as Research Data Netherlands, and the Research Data Alliance at an international level.

    Visit the official PLAN-E website at  plan-europe.eu

    Contact

    Advisor Alliances Dr. Patrick Aerts

    Patrick is responsible for the Netherlands eScience Center added value, business, and other external contacts. He is also a member of several international (mainly European) advisory bodies and boards of e-infrastructures and organizations.

    Profile page

    About

    About

    Our Mission:

    Enabling digitally enhanced research

    The Netherlands eScience Center is the Dutch national center of excellence for the development and application of research software to advance academic research.

    We are convinced that research in every academic discipline can be improved by taking advantage of available digital technology. We take a multidisciplinary approach,
    combining our deep knowledge of both academic research and software development to help define and solve research challenges.

    We share our ideas and the tools we develop. Together with a wide range of partner organizations, we advance not just our research projects, but the state of academic
    research in general.

    In 2015 we developed our strategy for the coming years, which you can download here: Netherlands eScience Center Strategy 2015-2020.

    The eScience Center is a joint initiative of the Dutch national research council (NWO) and the Dutch organisation for ICT in education and research (SURF).

    Publications

    Publications

    View our publications

    Further reading

    Getting a grip on data

    Interview with Prof. Wilco Hazeleger, Director Netherlands eScience Center

    The Center is a successful model for how to bridge disciplinary boundaries and proper scientific inquiry

    Interview with Sally Wyatt, Program Leader of the eHumanities Group KNAW 

    Whitepapers

    Infrastructuur duurzaam op maat

    Een analyse van de vraag naar ICT-infrastructuur en services in Nederland, February 2016

    Research Software at the Heart of Discovery

    Principles of Academic Software-Sustainability, February 2016

    Research Software Sustainability

    Report on a Knowledge Exchange Workshop, February 2016

    Putting down roots

    Securing the future of open access policies, January 2016

    Data-Stewardship in the Big Data Era

    Taking Care of Data, January 2013

    Mission & vision

    Mission & vision

    Mission: Enabling digitally enhanced research

    The Netherlands eScience Center is the national hub for the development and application of domain overarching software and methods for the scientific community. The eScience Center develops crucial bridges between increasingly complex modern e-infrastructures and the growing demands and ambitions of scientists from across all disciplines. 

    The application of digitally enhanced scientific practices, referred to as eScience, is a fundamental toolbox for all researchers and is a prerequisite to ensure the Dutch knowledge sector remains competitive and the greatest return can be achieved from scientific investments. In support of this goal the eScience Center funds and participates in multidisciplinary projects, with academia and industry, with optimized data-handling, efficient computing and big-data analytics at their core.

    In 2015 we developed our strategy for the coming years, which you can download here: Netherlands eScience Center Strategy 2015-2020.

    The eScience Center is a joint initiative of the Dutch national research council (NWO) and the Dutch organisation for ICT in education and research (SURF).

    Vision: The eScience Center 2020

    By 2020, the eScience Center will have a demonstrated track record for enabling scientific discovery through the application of eScience. This will be supported by significant contributions to scientific publications, the development and dissemination of an open source/access portfolio of eScience technologies and approaches, and the recognition of eStep as a national platform for eScience methods and tools. The quality of these methods will result in the international recognition of the eScience Center as a world leading national eScience center and valued collaborator. 

    The eScience Center's contribution to successful Horizon2020 proposals and the launch of new cross-disciplinary data-driven and compute-intensive public-private partnerships will demonstrate the center’s value to academic and commercial collaborations. Participation in projects receiving new funding from industry and the EU will allow the eScience Center to grow and develop outstations within collaborating Universities and knowledge institutes. 

    The eScience Center’s project portfolio will continue to develop based on a combination of open and targeted calls as well as continued support for a small number of successful initiatives and strategic alliances.

     By 2020, the eScience Center will have a demonstrated track record for enabling scientific discovery through the application of eScience

    At the national level, eScience will be recognized widely as a crucial discipline to enable domain scientists to engage with e-infrastructures. The eScience Center will be an important stakeholder in national discussions on the development of the nation’s e-infrastructure, promoting the needs of domain scientists. 

    The eScience Center will play a similar role in emerging discussions on topics such as data-stewardship and software sustainability. The eScience Center's eScience Research Engineers will begin to take roles in other academic and commercial groups, contributing to the maturation of the Dutch eScience community (measured by initiation of groups/programmes focussed on data-driven and compute-intensive scientific research).

    eScience & business

    eScience & business

    The Netherlands eScience Center enhances scientific breakthroughs in collaboration with both academic and business partners.

    Whether your business is actively participating in research, or developing innovations that can change the way people do science, we’d like to talk to you about the possibilities of working together.

    Careers

    Careers

    Job Opportunities

    eScience is a team effort

    We are always happy to hear from people that are interested in engaging scientific challenges! On a regular basis we are looking for eScience Research Engineers. If you have specific questions on the eScience Research Engineer profile, please contact Rob van Nieuwpoort

    eScience Research Engineers are our knowledge experts. They work directly with project teams and divide their time between the physical center at Amsterdam Science Park and the sites of the project partners.

    Our values

    Team commitment

    We focus on focus on achieving results jointly and interactively.

    External orientation

    We look outward, signaling developments and opportunities, and focus on working with external partners.

    Integrity

    We value openness and responsibility, and the confident and constructive expression of ideas. 

    Innovation

    We use imagination and creativity to come to unconventional solutions and new ideas, and we have the ambition to realize them.

    Career development 

    Performing world class research and developing eScience as a discipline requires that excellent scientists can work and develop their career at the Netherlands eScience Center. A Center like ours, that manages its own project portfolio but that is also a funder and a supporter for science, needs to be adequately managed and supported. Therefore we distinguish three main tracks of career development for the eScience Research Engineers: 

    • Technology Track
    • Research Track
    • Managerial Track

    The Managerial Track has an emphasis on coordination, organization and network functioning, the Technology Track has emphasis on technical skills and working in projects, and the Research Track has a scientific emphasis. The tracks are not mutually exclusive; there is a lot of overlap, in particular at earlier stages of career development.

    To realize the ambitions of the center we invest in the personal development of all of our staff. You will discuss your personal development goals with your coordinator at least two times per year. Together you develop a plan on how to reach these goals, and what you need from us in order to do so. For example you have the possibility to follow external training courses to develop your knowledge and skills, or you agree on contributing to, or leading, a specific project within the Center that is relevant for your grow path.

    Employment conditions

    We offer attractive employment conditions based on the  CAO-Onderzoekinstellingen

    Get in touch

    We are always happy to hear from people that are interested in engaging scientific challenges! On a regular basis we are looking for eScience Research Engineers.

    Contact Aletta Debernardi for general questions about job opportunities. 

    If you have specific questions on the eScience Research Engineer profile, please contact  Rob van Nieuwpoort.

    Job Notifier



     

     

    Background

    Background

    Digital Agenda of Ministry of Economic Affairs, Agriculture and Innovation

    Urban weather is different than in the countryside. Cities experience a so-called urban heat island effect and are typically warmer than their surroundings. Also, cities experience two parallel developments: increased urbanization and an enhanced frequency of warm episodes due to the changing global climate.

    The New Science

    Science, and the way we undertake research, is changing. The scale of information generation is now so great that science has to adapt or drown in a data deluge. Additionally, the days of individual researchers working in isolated.

    These developments may increase human health risks. For example, the 2003 European heat wave led to a health crisis in several European countries and 70.000 heat-related deaths. The situation is especially worrying for vulnerable groups, such as the elderly and people with health issues, but affects the work productivity and well-being of us all. If we want to keep life in the city comfortable in the future, a better understanding of urban weather and climate is essential

    Parisa’s work aimes at achieving optimal algorithms for high fidelity radio imaging with aperture array telescopes.

    Based on the work done in the Ibis project at the VU University Amsterdam, we are building a robust, stable system for running these large scale simulations on a possibly distributed set of resources, including supercomputers. This will allow astrophysicists from around the world to scale up their simulations, increasing our understanding of the universe.

    Cities experience a so-called urban heat island effect and are typically warmer than their surroundings.

    Lorem ipsum dolor sit amet

    Urban weather is different than in the countryside. Cities experience a so-called urban heat island effect and are typically warmer than their surroundings. Also, cities experience two parallel developments: increased urbanization and an enhanced frequency of warm episodes due to the changing global climate. These developments may increase human health risks. For example, the 2003 European heat wave led to a health crisis in several European countries and 70.000 heat-related deaths. The situation is especially worrying for vulnerable groups, such as the elderly and people with health issues, but affects the work productivity and well-being of us all. If we want to keep life in the city comfortable in the future, a better understanding of urban weather and climate is essential.

    The big future of data









     


    Important

    Science, and the way we undertake research, is changing. The scale of information generation is now so great that science has to adapt.

    Related projects

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