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Evelien Schat

eScience Research Engineer

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Evelien just finished her research master Methodology and Statistics for the Behavioural, Biomedical and Social Sciences at Utrecht University. Prior to this, she obtained an interdisciplinary Liberal Arts and Sciences degree at University College Utrecht, where she mainly focussed on Cognitive Neuroscience and Psychology. She will work two days a week as a junior researcher with Rens van de Schoot (Utrecht University), and three days a week at the eScience center, mainly contributing to the EYRA benchmark platform from a methodology and statistics perspective. 

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Key skills

• Scientific Computing

• Optimisation

• Web Development

• Python/C/JavaScript

Dr. Evert Rol

eScience Research Engineer

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Scientific Computing

Optimisation

Web Development

Python/C/JavaScript

Evert completed his PhD in astrophysics at the University of Amsterdam, on the topic of gamma-ray bursts. After that he has occupied several postdoctoral positions on observational astronomy, amongst others in the UK and Australia. Over time his activities has focused on the development of reduction and analysis software for telescope observations.

At the eScience Center, he works on combining distributed datasets in an easy-to-access fashion for researchers, within the European Climate Prediction system project.

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Drs. Arnaud de Jong

Airbus Defence and Space Netherlands B.V.

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Arnaud de Jong is Chief Executive Officer of Airbus Defence and Space Netherlands B.V., the largest space company in the Netherlands and supplier of high-tech products and services for the international space market. In addition, Arnaud is Head of the Cluster Solar Arrays, Systems & Services within the Space Systems programme line of Airbus Defence and Space, and with that responsible for all Solar Array activities in Leiden and Munich, for the product lines Launcher Structures, Instruments & Systems and Thermal-Mechanical Products in Leiden and for Compact Range activities in Munich. In his position Arnaud manages a team of around 300 space engineers in Leiden, the Netherlands, and a team of 120 aerospace professionals in Munich, Germany.

Before taking up his position as CEO of Airbus Defence and Space Netherlands, Arnaud held several positions worldwide, working and living in four countries since 1996. He started his career at Coopers and Lybrand. In 1999 he became Senior Manager in the Mergers & Acquisitions Department of Daimler Chrysler Aerospace HQ in Munich. After the merge of Daimler Chrysler, Matra and Construcciones Aeronáuticas into the global pan-European aerospace and defence corporation EADS (today Airbus), he held several positions within the Airbus organisation in Paris and Munich. In 2002, he was appointed Chief of Staff of the CEO of Airbus Defence and Security, Munich, Germany. In 2005, Arnaud joined the business unit Military Air Systems as Head of Strategy and Technology Management, which later on included operational responsibility for all Pilot-Training and flight operations as well.

Arnaud de Jong graduated as Master of Business Administration at The University of Groningen, studied at Business School École Supérieure de Commerce in Montpellier, France and completed his study with a scholarship in Montreal, Canada. In addition to his daily commitment to the teams of Airbus, Arnaud is responsible for the roadmap Space within Holland High Tech and member of several advisory councils (e.g. Delft University of Technology, TNO Industries and the Netherlands eScience Center).

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Frieda Kreuer, MSc

Communication internship

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Frieda finished her Master's degree in "Heritage and Memory Studies" at the Universiteit van Amsterdam in May 2017 and has since then been working as Junior Researcher for the Nederlandse Kastelenstichting.

When she was still living in Germany, Frieda worked on a monthly magazine for the LEGO company as part of a two-year editorial traineeship.

For her Bachelor's degree she studied English and History at the University of Mannheim.

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Dr. John Romein

ASTRON

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Key skills

• Parallel Algorithms

• High-performance computing

• Distributed computing

• Many-core accelerators

Stijn Heldens, MSc

eScience Research Engineer

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Key skills

Parallel Algorithms

High-performance computing

Distributed computing

Many-core accelerators

Stijn obtained his MSc degree in Computer Science from VU University, with a specialization in High-Performance Computing. His master thesis focused on the performance and scalability of community detection, a type of graph analysis where the goal is to split the dataset into cohesive components. During his thesis, he several developed multi-core and many-core methods for graph processing.

Before joining the Netherlands eScience Center, he worked at Delft University of Technology and University Twente on various graph-processing research projects. 

His research interests lie in parallel algorithm design, large-scale distributed/parallel processing, and GPU programming.

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Dr. Björn Baumeier

TU Eindhoven

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Dr. Micheal Weedon

University of Exeter

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Wim Som de Cerff

KNMI

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Dr. Wouter van Atteveldt

VU University Amsterdam

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Dr. Paola Grosso

University of Amsterdam

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Dr. Peter Bosman

CWI

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Dr. Michel Dumontier

Maastricht University

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Dr. Stefan Hickel

Delft University of Technology

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Prof. Dr. Jaap van der Vegt

University of Twente

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Prof. Dr. Roel Verstappen

University of Groningen

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Dr. Ivan Infante

VU University Amsterdam

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Prof. Dr. Claudia Filippi

University of Twente - MESA+ Research Institute for Nanotechnology

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Dr. Jan van Dijk

TU Eindhoven

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Dr. Marnix Wagemaker

Delft University of Technology

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Prof. Dr. Dick de Ridder

Wageningen University and Research Center

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Dr. Alexey Lyulin

TU Eindhoven

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Dr. Fred Wubs

University of Groningen

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Dr. Aletta Debernardi

Director Operations

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Aletta has a PhD in Biology (2007) and has worked for many years in research management for different scientific disciplines ranging from Linguistics to Physics. She has more than ten years of experience in the field of research innovation and impact.

She has been a consultant and non-scientific coordinator of large collaborative European projects at NEN (2007) and the VU (2010). In 2013 she joined the University of Leiden as Senior advisor research funding and became Director Knowledge Partnering of the TTO in 2015. In this function she managed a team of six advisors that linked research ideas and innovations to (societal) impact by using partnering, business development, grants and entrepreneurship to increase the research income & impact of the university and medical center.

In 2016 she became the Managing Director of a 100 MEuro new Advanced Research Center (ARC CBBC) and helped to build up the center. For this public private partnership of three universities and Shell, AkzoNobel and BASF, she was responsible for coordinating and implementing the strategic plan, managing HR, PR and finances and the setting up of the research and education program of the Center.

Aletta has a special interest in female entrepreneurship and gender balance. She organized and gave a workshop on gender balance at Kyoto University, Japan in 2017, is active in a female entrepreneurship network and is invited as reviewer for the EC in 2018.

In November 2017 Aletta joined the eScience Center as Director Operations.

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Key skills

• Scientific computing

• Parallel & distributed HPC methods

• Numerical modelling

• Python/ C/ Fortran

Dr. Inti Pelupessy

eScience Research Engineer

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Key skills

Scientific computing

Parallel & distributed HPC methods

Numerical modelling

Python/ C/ Fortran

Inti has a background in astrophysics and has published on topics reaching from numerical cosmology, galaxy dynamics, stellar cluster formation to the evolution of planetary systems.

He obtained his PhD from Leiden University. After his PhD Inti did a postdoc at CMU in Pittsburgh on cosmological structure formation. Back from the US, he joined the development of the astrophysical multi-purpose software environment (AMUSE). He developed this research grade software package to facilitate coupled multi-physics and multi-scale numerical simulations. AMUSE is used by students and researchers worldwide to formulate and conduct numerical experiments in astrophysics.

His interest in the development of efficient and easy to use methods for coupled simulations led him to head a cross-disciplinary effort to transplant the technology developed as part of the AMUSE project to the oceanographic and climate science domains. This effort, funded by the Netherlands eScience Center, resulted in the development of the OMUSE coupling framework.

Inti's main expertise lies in the field of scientific computing, with extensive knowledge about parallel HPC methods, distributed computing and numerical simulation methods.

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Key skills

• Molecular Simulations

• Energy Research

• Quantum Chemistry

• Numerical methods

• Programing Languages: Python, C, Fortran

Dr. Nicolas Renaud

eScience Coordinator

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Key skills

Molecular Simulations

Energy Research

Quantum Chemistry

Numerical methods

Programing Languages: Python, C, Fortran

Nicolas obtained a PhD in Nanoscience from University Paul Sabatier, Toulouse, France. During his PhD he studied new solutions for molecular quantum computing, or in simple words teaching single molecule how to count. In 2010, he joined the Theoretical Chemistry Department of Northwestern University where he studied how energy and electric charges propagate in biomolecules such as DNA and light harvesting complexes. He then moved in 2013 to the chemical Engineering Department of Delft University of Technology where he studied new ideas for solar energy research and molecular electronics.

Nicolas has developed different scientific software packages for various applications ranging from quantum transport to the calculation of electronic structure and electronic dynamics of molecular systems. He also has a keen interest in scientific visualization and illustration, statistical analysis of scientific data and the application of deep learning techniques to molecular science.

Nicolas joined the eScience Center in August 2017 as a research engineer.

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Key skills

• Semantic Web

• Recommender Systems

• Linked Data

• Statistics

• Data Analytics

• Programming languages: Python, SWI-prolog, PHP, Javascript

Valentina Maccatrozzo, MSc

eScience Research Engineer

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Key skills

Semantic Web

Recommender Systems

Linked Data

Statistics

Data Analytics

Programming languages: Python, SWI-prolog, PHP, Javascript

In the last five years, Valentina has been a PhD student affiliated with the Web & Media Group (VUA Computer Science Department), supervised by prof. Guus Schreiber, and by prof. Lora Aroyo.

The focus of her PhD is on the use of Semantic Web technologies to enhance Recommender Systems. In particular, Valentina investigated how to improve the description of the items to recommend with information gathered from different Linked Data sources.

The objective of Valentina's research is to improve the serendipity of recommendations. During the last year, she has also been employed by Huygens ING as a scientific programmer, where she developed a tool to enrich historical data with Linked Open Data sources.

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Key skills

• Machine learning

• Image processing

• Statistical modelling

• Algorithms

Dr. Wouter Kouw

eScience Research Engineer

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Key skills

Machine learning

Image processing

Statistical modelling

Algorithms

Wouter is a researcher in artificial intelligence and statistics. He obtained a Master of Science degree in Neuroscience from Maastricht University in 2013, with a focus on how the brain processes information. For his master thesis he interned at the Werner Reichardt Centre for Integrative Neuroscience in Tübingen, Germany. During his time there he worked on developing a computational model of how animal brains guide eye movements, such that they gather as much information as fast as possible.

In 2013, he started his PhD in Artificial Intelligence at Delft University of Technology, where he worked on systems that learn to make decisions. In particular, he focused on domain adaptation in machine learning, which is concerned with data from different populations. The aim is to learn from one population and generalize specifically to a target population. His research output consists of theoretical conditions for targeted generalization, domain-adaptive classification algorithms, robust parameter estimators and analyses of sampling variance. In 2016, he visited Cornell University in the U.S. to work on the combination of domain adaptation and causal inference.

Wouter is generally interested in mathematical models of intelligent behavior, probabilistic graphical models, statistical inference and probability theory.

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Key skills

• Data analysis

• Physics & astrophysics

• Scientific methods

• Machine learning

Dr. Ben de Vries

eScience Research Engineer

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Key skills

Data analysis

Physics & astrophysics

Scientific methods

Machine learning

Ben did his masters in physics and astrophysics at the UvA (cum laude) and his PhD in Leuven (Belgium). He worked on modeling the interaction between the radiation field and collections of solid-state particles. This to interpret infrared observations of stellar outflows and planet forming disks.

After his PhD he did two postdocs, one at Stockholm University and a second at the European Space Agency (ESTEC, The Netherlands). During those years he continued work on radiative transfer modeling and infrared observations and also focused on making and analyzing laboratory infrared spectra of meteoritic minerals. The work of Ben and colleagues led to multiple international publications (among which in Nature).

Ben is interested in different scientific disciplines, data analysis and visualization and he looks forward to developing himself in machine learning techniques. He uses python for most of his work and, among others, also has experience with sql, java and Fortran.

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Key skills

• numerical algorithms implementation

• functional programming

Dr. Felipe Zapata

eScience Research Engineer

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Key skills

numerical algorithms implementation

functional programming

Felipe did his PhD thesis on computational photochemistry, specifically on the dynamics of molecules in excited state. Since then Felipe has been developing software for scientific applications using a functional programming perspective.

He already collaborated with the eScience Center during the past 2 years, being a postdoc on the Computational Chemistry made Easy project.

Felipe is particularly focused on the implementation of numerical algorithms using Numpy and workflows in quantum chemistry using Noodles.

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Key skills

• Mathematical Modelling

• Economics

• Evolutionary Biology

• Game Theory

Laurens Bogaardt, MPhil

eScience Research Engineer

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Key skills

Mathematical Modelling

Economics

Evolutionary Biology

Game Theory

Laurens studied Theoretical Physics and Economics and did some research in Evolutionary Biology. His main interests lie in Mathematical Modelling and trying to understand 'mechanisms', in particular using Game Theory.

Laurens has previously worked as a software engineer and as a consultant, but he missed the academic challenges at these jobs. The diverse projects at the eScience Center are more interesting and fun!

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Prof. Jan de Boer

University of Amsterdam

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Prof. Carol Goble

Professor at the University of Manchester

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Maureen van Eijnatten, MSc

VU University Medical Center

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Key skills

• Statistical modelling

• Machine learning

• Astronomy and planetary science

Dr. Yifat Dzigan

eScience Research Engineer

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Key skills

Statistical modelling

Machine learning

Astronomy and planetary science

Yifat has a bachelor degree in Physics from Ben-Gurion university (Israel) and a master in Physics from Tel-Aviv university (Israel), studying gravitational lensing in galaxy clusters. She received her Ph.D. in Planetary Science (Tel-Aviv university), where she focused on studying detection methods for transiting extra-solar planets. In the course of her research she became interested in statistics and algorithms and developed innovative methods for predictive modeling. These methods can be used to increase the yield of transiting planets from low-cadence surveys.

After moving to the Netherlands, Yifat continued to a post-doc position at the exoplanets group in the institute of Astronomy in the University Van Amsterdam, where she worked on statistical analysis of planetary atmospheres. Aside from planets, she is interested in machine learning, Bayesian inference, and algorithms.

Yifat joined the Netherlands eScience Center in summer 2017.

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Key skills

• Scientific Programming

• Efficient Computing

• Physics

• Python, C

Bouwe Andela, MSc

eScience Research Engineer

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Key skills

Scientific Programming

Efficient Computing

Physics

Python, C

Bouwe studied at the of University of Amsterdam where he obtained a BSc in physics, an MSc in astronomy and an MSc in theoretical physics.

His astronomy master’s project was on estimating and modelling gravitational waves emitted from neutron star thermonuclear bursts, while his physics master’s project was a theoretical study on extending the standard model of particle physics with right handed neutrinos and a heavy gauge boson.

After graduating, he started working in the space industry, where he developed software for processing image data acquired by earth observation satellites for KNMI and ESA.

Among other things, he implemented improvements to the algorithms used in the data processors, increasing the accuracy and dramatically reducing the processing time. He is most experienced in the languages Python and C, but very interested in learning new languages and programming concepts. His main research interest is applying advanced computational techniques to solve real world problems, e.g. in medical science, environmental science, or developing safer and greener technology.

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Tom Klaver, MSc

eScience Research Engineer

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Tom obtained his BSc and MSc in physics (track Particle Physics) at the University of Amsterdam. For his thesis he worked on technology behind proton radiography, a method that can possibly improve the accuracy of proton radiation treatment of tumors.

Tom has always had an interest in computer programming and enjoys using his skills to solve practical problems. He is especially familiar with web standards and joined the eScience Center to help in projects with web related problems.

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Key skills

• Computational modeling

• Knowledge engineering

• Linked data

• Environmental science

Dr. Martine de Vos

eScience Research Engineer

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Key skills

Computational modeling

Knowledge engineering

Linked data

Environmental science

Martine studied at Wageningen University where she obtained a MSc in both Biology and Environmental Science. After graduation in 2005 she worked at the Radboud University Nijmegen as a junior researcher modeling the accumulation and behavior of toxic chemicals in the environment. In 2007 she joined the PBL Netherlands Environmental Assessment Agency. At PBL she supported colleagues in developing, using and testing various types of computational models on, for example, sustainable development, flood risk and the Dutch energy system

In 2011 she started her PhD research at the Computer Science department of the Vrije Universiteit Amsterdam. During this research she developed methods for the automatic interpretation of spreadsheets that are used in natural science research.

Martine joined the Netherlands eScience Center in summer 2017. In her view, science is about sharing knowledge. At the eScience Center she aims to contribute to transparency in research software and methods, so that these can be understood and reused by other persons than the original developers.

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Prof. dr. Christian Lange

Utrecht University

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Dr. Martin Reynaert

Tilburg University

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Dr. Susan Hogervorst

Open University

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Prof. Willem Bouten

University of Amsterdam

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Key skills

• Fluid Mechanics

• Computational Fluid Dynamics

• Python

Yang Liu, MSc

eScience Research Engineer

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Key skills

Fluid Mechanics

Computational Fluid Dynamics

Python

Yang obtained his bachelor in Dalian University of Technology, China. Major in Naval Architecture and Ocean Engineering, Yang found himself of great interest in fluid mechanics and numerical modeling. He extended his interest in the field of Computational Fluid Dynamics (CFD) and received his master in Delft University of Technology, Netherlands. His master thesis was finished in Maritime Research Institute Netherlands (MARIN), with a topic of the research on Vortex Induced Motion (VIM) of offshore platforms through CFD.

In 2017, Yang joined the Netherlands eScience Center. Serving as a PhD candidate, Yang works on the Blue Action project, under the EU Horizon 2020 Work Programme. The aim of the project is to gain more understanding about the Arctic weather and climate. Yang mainly focus on the atmospheric and oceanic energy transport towards the Arctic region. The access to high resolution numerical climate models and latest reanalysis datasets enables him to study the Arctic climate and improve the weather prediction.

Meanwhile, he also works in the Wageningen University (WUR).

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Key skills

• Programming languages

• Compilers

• Functional programming

• Algorithms

• Randomized testing

Dr. Atze van der Ploeg

eScience Research Engineer

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Key skills

Programming languages

Compilers

Functional programming

Algorithms

Randomized testing

Atze studied at the Vrije Universiteit (VU) in Amsterdam, where he got a BSc in Computer Science and an MSc in Theoretical Computer Science (cum laude). During his studies he got interested in programming languages, functional programming and compilers, among other things. He joined the Software Analysis and Transformation team at Centrum voor Wiskunde en Informatica (CWI), where he got a PhD on programming language topics under supervision of Prof. Paul Klint.

He then moved to Gothenburg, Sweden for a post-doc at Chalmers University of Technology where he continued to work on (functional) programming languages, mainly topics relating to the programming language Haskell. Aside from programming languages and programming languages-research, he is knowledgeable in algorithms, computer graphics, randomized testing and recently, he delved into the fascinating area of machine learning.

Atze joined the Netherlands eScience Center as an eScience Research Engineer in March 2017.

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Prof. Dr. G.J. Westerhof

University of Twente

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Prof. Dr. Jos Roerdink

University of Groningen

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Dr. Morag Henderson

University College London

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Prof. dr. Hans van Lint

Delft University of Technology

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Dr. Nirvana Meratnia

University of Twente

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Dr. Sebastian Bathiany

Wageningen University and Research Center

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Prof. Dr. Marcel J. Broersma

University of Groningen

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Prof. Dr. Alexandre M.J.J. Bonvin

Utrecht University

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Prof. Dr. Jurgen Vinju

CWI

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Dr. Raul Zurita Milla

University of Twente

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Dr. Jeroen de Ridder

University Medical Center Utrecht

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Dr. Sarod Yatawatta

ASTRON

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Dr. Daniel W. Kissling

University of Amsterdam

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Dr. Steffen M. Olsen

Nansen Environmental and Remote Sensing Center

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Jana Sillmann MSc

CICERO

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Prof. Richard Visser

Wageningen University

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Key skills

• Computer vision

• Image processing

• Medical image analysis

• Algorithm validation

• Grand challenges

Dr. Adriënne Mendrik

eScience Coordinator

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Key skills

Computer vision

Image processing

Medical image analysis

Algorithm validation

Grand challenges

Adriënne has a bachelor degree in computer science and a master degree (cum laude) and PhD degree in biomedical image science.

Her PhD research at the image sciences institute (ISI) in the UMC Utrecht focused on image processing to reduce the X-ray radiation dose in computed tomography (CT) scans while maintaining image quality. She developed three noise reduction methods (one for 3D and two for 4D data) to improve the image quality of CT scans acquired with low radiation dose. As well as a method to derive vascular information from cerebral 4D CT perfusion (CTP) scans that has the potential to replace the additional CT angiography (CTA) scan.

As a post-doc at the biomedical image analysis group (BIGR) in the Erasmus MC (Rotterdam) she focused on noise reduction in 3D XperCT scans acquired with the C-arm CBCT system and compressed sensing, after which she returned to the ISI for her post-doc research on quantitative analysis of MR brain scans for cerebrovascular disease management.

During her post-doc research she developed an interest in grand challenges ( https://grand-challenge.org/All_Challenges/), which are open scientific competitions that use evaluation data and metrics to rank the performance of algorithms with respect to an objective. She has organized the MICCAI (http://www.miccai2013.org/) grand challenge on MR brain image segmentation (MRBrainS) workshop in Nagoya (Japan) and has set-up and maintains the open MRBrainS challenge evaluation framework (http://mrbrains13.isi.uu.nl/). At IEEE ISBI 2015 (http://biomedicalimaging.org/2015/) in New York, she organized the challenge workshop on neonatal and adult MR brain image segmentation (neatbrains15.isi.uu.nl). She is chair of the challenge workshops at IEEE ISBI '16 and '17 and co-organized the tutorial on designing benchmarks and challenges for measuring algorithm performance in biomedical image analysis at IEEE ISBI '16. At the NFBIA Summer School 2015, she gave a workshop on designing challenges in biomedical image analysis.

She was initiator and organizer of the ImagO colloquium series on medical imaging for the PhD programme of the graduate school of life sciences in the UMC Utrecht and was in the program committee of the international workshop on machine learning in medical imaging (MLMI) '15 and '16 at MICCAI.

In October 2016, Adriënne joined the Netherlands eScience Center as an eScience coordinator.

Her research is currently focussed on representation learning and designing a theoretical framework for grand challenges in biomedical image analysis.

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Prof. Andre Dekker

MAASTRO clinic

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Dr. Bernd Rieger

Delft University of Technology

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Dr. Cornelis Wouter Hagen

Delft University of Technology

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Prof. Mark Huijbregts

Radboud University Nijmegen

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Dr. Gijs van Dijck

Maastricht University

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Dr. Tom Bakker

Science Policy Officer

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Tom holds a PhD in Communication Science. He has studied Communication Science (MSc) and Journalism (MA) at the University of Amsterdam. The emergence and impact of new ICT and media technologies has always been a key theme in his work. After working as a television and newspaper journalist, he has been a PhD candidate and a lecturer at the University of Amsterdam and has been involved in various research projects in the field of social media, journalism and politics. Between 2012 and 2016, Tom worked as a researcher and consultant at the department Strategy & Policy of the Information Society of TNO. He has been involved in national and international research projects related to technology acceleration, smart industry, entrepreneurship, big data, privacy and telecommunication. Furthermore, Tom is the co-author of the Handboek Nieuwe Media (Handbook New Media) and is a mentor for the tech accelerator Startupbootcamp Amsterdam.

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Key skills

• Monte Carlo simulations

• Tomographic image reconstruction

• Proton therapy and radiation detection technologies

Faruk Diblen, MSc

eScience Research Engineer

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Key skills

Monte Carlo simulations

Tomographic image reconstruction

Proton therapy and radiation detection technologies

Faruk has a bachelor degree in Engineering Physics and a MSc degree in Experimental Particle Physics. During his MSc he has worked for CERN ATLAS TRT group and was involved in software development as well as detector R&D efforts. 

After completing his MSc, Faruk started his PhD at Ghent University and he has worked for ENVISION project which aims to develop novel imaging systems for hadrontherapy. Faruk is finishing his PhD at the Center for Advanced Radiation Technology (KVI-CART) of the University of Groningen. During his PhD, Faruk has been involved in Monte Carlo simulations of proton therapy and related TOF-PET-imaging. He participated in experiments related to proton therapy at the cyclotron facility of KVI-CART. 

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Dr. Peter Hinrich

SURFnet

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Dr. Wim M. Otte

UMC Utrecht

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Key skills

• Financial administration

• Reporting

• Bookkeeping

• Management accounting

Noura Saïdi

Assistant Operations

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Key skills

Financial administration

Reporting

Bookkeeping

Management accounting

Noura studied bussiness economics at the Hoge School van Amsterdam. She finished her bachelor in 2014. During her study she did interns at the Belastingdienst and the Gemeente Amsterdam.’’

In February 2016 Noura joined the Netherlands eScience Center as Assistant Operations.

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Key skills

• High-performance computing

• Monte Carlo simulation

• Numerics

• Physics

Dr. Gijs van den Oord

eScience Research Engineer

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Key skills

High-performance computing

Monte Carlo simulation

Numerics

Physics

Gijs van den Oord studied theoretical physics and mathematics at Utrecht University. In his master thesis, he investigated the relation between super-membranes and matrix models in string theory. After that he started a PhD in particle phenomenology at the Radboud University and Nikhef, where he developed expertise in high-performance computing, numerical simulation and the Monte Carlo method. With his C++ code he was able to simulate weak boson scattering in Higgsless models at the Large Hadron Collider. 

After his graduation, Gijs has worked as a consultant in scientific software development. He has helped creating the DeltaShell framework at Deltares, embedding hydrological computational codes into object-oriented wrappers to facilitate visualization and coupling. Here he has also contributed to D-Flow Flexible Mesh, a shallow-water equation solver on unstructured grids. 

Recently Gijs has started working on Primavera, a project with KNMI to study the EC-Earth climate model at high resolution, and a project with CWI and KNMI that aims to couple cloud-resolving large-eddy simulations to global atmospheric climate codes.

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Key skills

• Machine learning

• Big Data Analytics

• Python

• Spark

Dafne van Kuppevelt, MSc

eScience Research Engineer

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Key skills

Machine learning

Big Data Analytics

Python

Spark

Dafne studied Computer Science and Mathematics at Utrecht University. During her master studies, she focused on Machine Learning and Data Analytics. Her master thesis was on recognizing product names using Conditional Random Fields, which she developed during her internship at VigLink in San Francisco.

After graduation, Dafne worked at ING as a Data Scientist, where she further developed her skills in Machine Learning and applied them to different business problems. She also got interested in distributed Machine Learning for big data sets, using tools like Spark.

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Dr. Stefan Dekker

Utrecht University

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Prof. Dr. Kees Aarts

University of Groningen

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Prof. Bettina Speckmann

TU Eindhoven

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Prof. Dr. Annalisa Fasolino

Radboud University Nijmegen

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Karima El-Hadji

Secretary

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Karima completed the training Sociaal-juridische Dienstverlening at Frans Hals College. She has over 15 years of working experience at different companies in different disciplines. 

In February 2016, Karima joined the Netherlands eScience Center as a Secretary.

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Key skills

• Evolutionary Algorithms

• Machine Learning

• Optimization

• Robotics

Dr. Berend Weel

eScience Research Engineer

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Key skills

Evolutionary Algorithms

Machine Learning

Optimization

Robotics

Berend did his BSc. in Computer Science and MSc. in Technical Artificial Intelligence at the VU University Amsterdam. He did his PhD on artificial evolution of robot organisms. The idea behind his thesis was the creation of real world objects that evolve, in this case robot organisms. 

In particular he aimed to allow robots to evolve their bodies and minds to adapt to their environment and tasks. 

For his research he developed, tested and compared algorithms for such systems in simulation. He then developed a complete ecosystem for robot organisms in which the bodies and minds of these robot organisms evolved using these algorithms.

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Key skills

• High-performance programming

• C++ programming

• Bayesian methods

• Databases and data models

• System architecture

Lourens Veen, MSc

eScience Research Engineer

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Key skills

High-performance programming

C++ programming

Bayesian methods

Databases and data models

System architecture

Lourens has worked at the Netherlands eScience Center as an eScience Research Engineer since early 2016. He currently works on the Enhancing Protein-Drug Binding Prediction project, creating software for doing large-scale, fast molecular dynamics simulations on High-Performance Computing resources. In his other main project, e-MUSC, he works on theory and tools for doing uncertainty quantification and sensitivity analysis of large, compute intensive multiscale models, with applications in biomedicine as well as other fields.

Before joining the eScience Center, Lourens worked at the Computational Geo-Ecology group of the University of Amsterdam, where he led the design of the data model and system architecture of the Dutch National Database of Flora and Fauna (NDFF). The NDFF is a repository for species observations, in which volunteer and professional observers record observations. The system is used by governments to ensure compliance with EU nature protection directives, by scientists for modelling species distributions, and by companies operating in the Dutch landscape to assess potential risks to nature and any needed mitigations.

After this, he was a PhD candidate, working on the incorporation of dispersal limitations into species distribution models, and fitting such models to observation data using Bayesian techniques. He also worked on processing high-resolution (30m / 600 gigapixel) global forest cover data into statistics on forest loss and fragmentation, with the goal of investigating at which scales ecosystem services are most affected by these changes.

Lourens studied Computer Science at the University of Twente in The Netherlands, where he received an MSc (Hons.) in Databases and Information Systems.

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Key skills

• Graph algorithms and network analysis

• High-performance computing

• Physics (climatology)

• Formal modelling and large-scale simulations

• Scientific/Object-Oriented/Functional programming

• IoT

Dr. Rena Bakhshi

eScience Coordinator

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Key skills

Graph algorithms and network analysis

High-performance computing

Physics (climatology)

Formal modelling and large-scale simulations

Scientific/Object-Oriented/Functional programming

IoT

Rena holds double MSc in Applied Mathematics from Baku State University and in Computer Science from KTH, Sweden. In 2011 she received her PhD degree in Theoretical Computer Science from VU Amsterdam. Her research focused on (formal) modelling and analysis of large-scale stochastic systems. She worked as a postdoctoral fellow and an Assistant Professor at VU, and research visitor at NICTA Sydney and University of Melbourne on variety of interdisciplinary projects related to large-scale complex sytems.

Rena joined the Netherlands eScience Center in 2016, she is coordinating several climate science and physics projects.

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Dr. Anneke Sools

University of Twente

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Dr. Malcolm Roberts

Met Office

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Prof. Daan Crommelin

CWI

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Dr. Sascha Caron

Nikhef

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Dr. Albert-Jan Boonstra

ASTRON

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Prof. Alfons Hoekstra

University of Amsterdam

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Dr. Michael Lees

University of Amsterdam

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Prof. Sander Klous

University of Amsterdam

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Dr. Joeri van Leeuwen

ASTRON

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Dr. Daan Geerke

VU University Amsterdam

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Prof. Bettina Speckmann

TU Eindhoven

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Dr. Wouter Verkerke

Nikhef

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Dr. Francesco Carlo Nex

University of Twente

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Dr. Dorothea Samtleben

Leiden University

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Prof. Ben Schmand

University of Amsterdam

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Prof. Aske Plaat

Leiden University

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Prof. Rob van der Mei

VU University Amsterdam

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Prof. Marcel Das

CentERdata

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Key skills

• Bioinformatics

• Bio-molecular databases

• Unsupervised learning (clustering)

• Distributed/parallel computing

• Web/UI development

• Scientific and statistical computing: Python, R, C/C++

Dr. Arnold Kuzniar

eScience Research Engineer

Profile summary

Key skills

Bioinformatics

Bio-molecular databases

Unsupervised learning (clustering)

Distributed/parallel computing

Web/UI development

Scientific and statistical computing: Python, R, C/C++

Arnold graduated in Molecular Biology (2004, Comenius University in Bratislava, Slovakia). During his masters, he participated in an exchange program at Wageningen University and Research Centre (WUR) in the Netherlands and followed training in bioinformatics. His thesis focused on comparative genomics of White spot syndrome (shrimp) virus isolates, in particular on detecting genetic changes and epidemiological markers in the genomes.

Arnold continued with a PhD research on orthology-based clustering and data integration at the Laboratory of Bioinformatics, WUR (2009). In close collaboration with SURFsara, he used the Dutch Life Science Grid to compute a comprehensive map of corresponding (orthologous) genes for all species with fully sequenced genomes, which also involved the development of a fast and memory-efficient graph heuristics.

As a postdoctoral researcher he joined an e-Science project at the Department of Ecology and Evolution, University of Lausanne/Swiss Institute of Bioinformatics, aimed at genome-wide detection of positive selection across the animal kingdom using the Swiss Multi-science Computing Grid. After returning to the Netherlands, he worked at the Department of Genetics, Erasmus Medical Center, and developed bioinformatics tools to analyze mass spectrometry-based proteomics data.

Arnold joined the Netherlands eScience Center in 2015 to work on projects that require optimized data handing (e.g. using Linked Data approach), analytics and/or efficient computing. His interests include the development of efficient algorithms, user-friendly tools and databases for molecular life. sciences.

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