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Your search keyword '"Gurwitz, Kim T."' showing total 4 results
Start Over Author "Gurwitz, Kim T." Topic computational biology
4 results on '"Gurwitz, Kim T."'

1. EMBL's European Bioinformatics Institute (EMBL-EBI) in 2023.

Author

Thakur M, Buniello A, Brooksbank C, Gurwitz KT, Hall M, Hartley M, Hulcoop DG, Leach AR, Marques D, Martin M, Mithani A, McDonagh EM, Mutasa-Gottgens E, Ochoa D, Perez-Riverol Y, Stephenson J, Varadi M, Velankar S, Vizcaino JA, Witham R, and McEntyre J

Subjects
Databases, Nucleic Acid, Europe, Computational Biology organization & administration, Computational Biology trends, Academies and Institutes organization & administration, Academies and Institutes trends
Abstract

The European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI) is one of the world's leading sources of public biomolecular data. Based at the Wellcome Genome Campus in Hinxton, UK, EMBL-EBI is one of six sites of the European Molecular Biology Laboratory (EMBL), Europe's only intergovernmental life sciences organisation. This overview summarises the latest developments in the services provided by EMBL-EBI data resources to scientific communities globally. These developments aim to ensure EMBL-EBI resources meet the current and future needs of these scientific communities, accelerating the impact of open biological data for all., (© The Author(s) 2023. Published by Oxford University Press on behalf of Nucleic Acids Research.)

Published
2024
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2. A framework to assess the quality and impact of bioinformatics training across ELIXIR.

Author

Gurwitz KT, Singh Gaur P, Bellis LJ, Larcombe L, Alloza E, Balint BL, Botzki A, Dimec J, Dominguez Del Angel V, Fernandes PL, Korpelainen E, Krause R, Kuzak M, Le Pera L, Leskošek B, Lindvall JM, Marek D, Martinez PA, Muyldermans T, Nygård S, Palagi PM, Peterson H, Psomopoulos F, Spiwok V, van Gelder CWG, Via A, Vidak M, Wibberg D, Morgan SL, and Rustici G

Subjects
Algorithms, Biomedical Research, Computational Biology standards, Curriculum, Data Collection, Databases, Factual, Education, Continuing, Europe, Program Evaluation, Reproducibility of Results, Research Personnel, Software, User-Computer Interface, Computational Biology education, Quality Control
Abstract

ELIXIR is a pan-European intergovernmental organisation for life science that aims to coordinate bioinformatics resources in a single infrastructure across Europe; bioinformatics training is central to its strategy, which aims to develop a training community that spans all ELIXIR member states. In an evidence-based approach for strengthening bioinformatics training programmes across Europe, the ELIXIR Training Platform, led by the ELIXIR EXCELERATE Quality and Impact Assessment Subtask in collaboration with the ELIXIR Training Coordinators Group, has implemented an assessment strategy to measure quality and impact of its entire training portfolio. Here, we present ELIXIR's framework for assessing training quality and impact, which includes the following: specifying assessment aims, determining what data to collect in order to address these aims, and our strategy for centralised data collection to allow for ELIXIR-wide analyses. In addition, we present an overview of the ELIXIR training data collected over the past 4 years. We highlight the importance of a coordinated and consistent data collection approach and the relevance of defining specific metrics and answer scales for consortium-wide analyses as well as for comparison of data across iterations of the same course., Competing Interests: The authors have declared that no competing interests exist.

Published
2020
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3. Designing a course model for distance-based online bioinformatics training in Africa: The H3ABioNet experience.

Author

Gurwitz KT, Aron S, Panji S, Maslamoney S, Fernandes PL, Judge DP, Ghouila A, Domelevo Entfellner JB, Guerfali FZ, Saunders C, Mansour Alzohairy A, Salifu SP, Ahmed R, Cloete R, Kayondo J, Ssemwanga D, and Mulder N

Subjects
Africa, Computational Biology organization & administration, Databases, Factual, Humans, User-Computer Interface, Computational Biology education, Computer-Assisted Instruction methods, Internet
Abstract

Africa is not unique in its need for basic bioinformatics training for individuals from a diverse range of academic backgrounds. However, particular logistical challenges in Africa, most notably access to bioinformatics expertise and internet stability, must be addressed in order to meet this need on the continent. H3ABioNet (www.h3abionet.org), the Pan African Bioinformatics Network for H3Africa, has therefore developed an innovative, free-of-charge "Introduction to Bioinformatics" course, taking these challenges into account as part of its educational efforts to provide on-site training and develop local expertise inside its network. A multiple-delivery-mode learning model was selected for this 3-month course in order to increase access to (mostly) African, expert bioinformatics trainers. The content of the course was developed to include a range of fundamental bioinformatics topics at the introductory level. For the first iteration of the course (2016), classrooms with a total of 364 enrolled participants were hosted at 20 institutions across 10 African countries. To ensure that classroom success did not depend on stable internet, trainers pre-recorded their lectures, and classrooms downloaded and watched these locally during biweekly contact sessions. The trainers were available via video conferencing to take questions during contact sessions, as well as via online "question and discussion" forums outside of contact session time. This learning model, developed for a resource-limited setting, could easily be adapted to other settings.

Published
2017
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4. A framework to assess the quality and impact of bioinformatics training across ELIXIR

Author

Eija Korpelainen, Allegra Via, Marko Vidak, Brane Leskošek, Lee Larcombe, Louisa J. Bellis, Mateusz Kuzak, Loredana Le Pera, Patricia M. Palagi, Paula Martinez, Celia W.G. van Gelder, Sarah L. Morgan, Tuur Muyldermans, Jessica M. Lindvall, Gabriella Rustici, Kim T. Gurwitz, Hedi Peterson, Alexander Botzki, Roland Krause, Fotis Psomopoulos, Victoria Dominguez Del Angel, Balint L. Balint, Ståle Nygård, Diana Marek, Eva Alloza, Daniel Wibberg, Pedro Fernandes, Prakash Singh Gaur, Jure Dimec, Vojtech Spiwok, Barcelona Supercomputing Center, Department of Genetics [Cambridge], University of Cambridge [UK] (CAM), European Bioinformatics Institute [Hinxton] (EMBL-EBI), EMBL Heidelberg, MRC Human Genetics Unit, University of Edinburgh-Western General Hospital, Barcelona Supercomputing Center - Centro Nacional de Supercomputacion (BSC - CNS), Department of Biochemistry and Molecular Biology, University of Debrecen, Flanders Interuniversity Institute for Biotechnology (VIB), Institute for Biostatistics and Medical Informatics, Faculty of Medicine, University of Ljubljana -University of Ljubljana, Unité de Recherche Génomique Info (URGI), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Instituto Gulbenkian de Ciência [Oeiras] (IGC), Fundação Calouste Gulbenkian, CSC - IT Center for Science Ltd, Luxembourg Centre For Systems Biomedicine (LCSB), University of Luxembourg [Luxembourg], Dutch Techcentre for Life Sciences [Utrecht], Bioenergetics and Molecular Biotechnologies ( IBIOM), Institute of Biomembranes, National Research Council of Italy (CNR)-National Research Council of Italy (CNR), National Bioinformatics Infrastructure Sweden (NBIS), Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University-Stockholm University-Department of Biochemistry and Biophysics, Stockholm University-Stockholm University, Swiss Institute of Bioinformatics [Lausanne] (SIB), Université de Lausanne (UNIL), Department of Informatics [Oslo], Faculty of Mathematics and Natural Sciences [Oslo], University of Oslo (UiO)-University of Oslo (UiO), Institute of Computer Science [University of Tartu, Estonie], University of Tartu, Institute of Applied Biosciences, Karlsruhe Institute of Technology (KIT), Department of Biochemistry and Microbiology, University of Chemistry and Technology Prague (UCT Prague), Institute of Molecular Biology and Pathology (IBPM), Consiglio Nazionale delle Ricerche (CNR), Genome Research of Industrial Microorganisms, Universität Bielefeld = Bielefeld University, European Commission within the Research Infrastructures programme of Horizon 2020 676559, Gurwitz, Kim T [0000-0003-1992-5073], Singh Gaur, Prakash [0000-0003-3272-628X], Bellis, Louisa J [0000-0001-9581-870X], Larcombe, Lee [0000-0003-3150-6445], Alloza, Eva [0000-0001-8385-9336], Botzki, Alexander [0000-0001-6691-4233], Dimec, Jure [0000-0002-9525-9028], Dominguez Del Angel, Victoria [0000-0002-5514-6651], Fernandes, Pedro L [0000-0003-2124-0241], Krause, Roland [0000-0001-9938-7126], Kuzak, Mateusz [0000-0003-0087-6021], Le Pera, Loredana [0000-0002-0076-9878], Leskošek, Brane [0000-0001-5202-2349], Lindvall, Jessica M [0000-0002-5042-8481], Marek, Diana [0000-0002-9812-6351], Martinez, Paula A [0000-0002-8990-1985], Muyldermans, Tuur [0000-0002-3926-7293], Palagi, Patricia M [0000-0001-9062-6303], Peterson, Hedi [0000-0001-9951-5116], Psomopoulos, Fotis [0000-0002-0222-4273], Spiwok, Vojtech [0000-0001-8108-2033], van Gelder, Celia WG [0000-0002-0223-2329], Vidak, Marko [0000-0001-7901-3936], Wibberg, Daniel [0000-0002-1331-4311], Morgan, Sarah L [0000-0001-9528-8323], Rustici, Gabriella [0000-0003-3085-1271], and Apollo - University of Cambridge Repository

Subjects
FOS: Computer and information sciences, 0301 basic medicine, Program evaluation, Biomedical Research, Databases, Factual, Economics, Computer science, Social Sciences, Surveys, Bioinformatics, Geographical Locations, Computational biology, Database and Informatics Methods, Software Pipelines, Multidisciplinaire, généralités & autres [F99] [Sciences du vivant], User-Computer Interface, Software, 0302 clinical medicine, Information processing, Biology (General), computer.programming_language, media_common, training, Careers, Ecology, ELIXIR Training Platform, Member states, Data Collection, FOS: Social sciences, bioinformatics, Research Assessment, Elixir, Research Personnel, Europe, Computational Theory and Mathematics, Research Design, Modeling and Simulation, impact, Elixir (programming language), Curriculum, Algorithms, Employment, Quality Control, Informàtica::Aplicacions de la informàtica::Bioinformàtica [Àrees temàtiques de la UPC], Information storage and retrieval systems, Computer and Information Sciences, Education, Continuing, quality assessment, QH301-705.5, media_common.quotation_subject, Multidisciplinary, general & others [F99] [Life sciences], Research and Analysis Methods, Education, Instruction Pipelines, 03 medical and health sciences, Cellular and Molecular Neuroscience, Data visualization, Modelling and Simulation, Computational Techniques, Bioinformatica, Genetics, Relevance (information retrieval), Quality (business), [SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology, Molecular Biology, Ecology, Evolution, Behavior and Systematics, Survey Research, Data collection, Impact assessment, Data Visualization, Sustainability science, Computational Pipelines, Computational Biology, Reproducibility of Results, ELIXIR, 030104 developmental biology, Labor Economics, People and Places, Portfolio, computer, 030217 neurology & neurosurgery, Program Evaluation
Abstract

ELIXIR is a pan-European intergovernmental organisation for life science that aims to coordinate bioinformatics resources in a single infrastructure across Europe; bioinformatics training is central to its strategy, which aims to develop a training community that spans all ELIXIR member states. In an evidence-based approach for strengthening bioinformatics training programmes across Europe, the ELIXIR Training Platform, led by the ELIXIR EXCELERATE Quality and Impact Assessment Subtask in collaboration with the ELIXIR Training Coordinators Group, has implemented an assessment strategy to measure quality and impact of its entire training portfolio. Here, we present ELIXIR’s framework for assessing training quality and impact, which includes the following: specifying assessment aims, determining what data to collect in order to address these aims, and our strategy for centralised data collection to allow for ELIXIR-wide analyses. In addition, we present an overview of the ELIXIR training data collected over the past 4 years. We highlight the importance of a coordinated and consistent data collection approach and the relevance of defining specific metrics and answer scales for consortium-wide analyses as well as for comparison of data across iterations of the same course. ELIXIR-EXCELERATE is funded by the European Commission within the Research Infrastructures programme of Horizon 2020, grant agreement number 676559 (https://ec.europa.eu/programmes/horizon2020/en/area/researchinfrastructures). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

Published
2020

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