Abstract

Open science and collaboration are necessary to facilitate the advancement of Parkinson’s disease (PD) research. Hackathons are collaborative events that bring together people with different skill sets and backgrounds to generate resources and creative solutions to problems. These events can be used as training and networking opportunities, thus we coordinated a virtual 3-day hackathon event, during which 49 early-career scientists from 12 countries built tools and pipelines with a focus on PD. Resources were created with the goal of helping scientists accelerate their own research by having access to the necessary code and tools. Each team was allocated one of nine different projects, each with a different goal. These included developing post-genome-wide association studies (GWAS) analysis pipelines, downstream analysis of genetic variation pipelines, and various visualization tools. Hackathons are a valuable approach to inspire creative thinking, supplement training in data science, and foster collaborative scientific relationships, which are foundational practices for early-career researchers. The resources generated can be used to accelerate research on the genetics of PD.

Details

Title
The IPDGC/GP2 Hackathon - an open science event for training in data science, genomics, and collaboration using Parkinson’s disease data
Author
Leonard, Hampton L. 1   VIAFID ORCID Logo  ; Murtadha, Ruqaya 2 ; Martinez-Carrasco, Alejandro 3 ; Jama, Alina 4 ; Müller-Nedebock, Amica Corda 5 ; Gil-Martinez, Ana-Luisa 6 ; Illarionova, Anastasia 7   VIAFID ORCID Logo  ; Moore, Anni 8   VIAFID ORCID Logo  ; Bustos, Bernabe I. 9   VIAFID ORCID Logo  ; Jadhav, Bharati 10 ; Huxford, Brook 11   VIAFID ORCID Logo  ; Storm, Catherine 3   VIAFID ORCID Logo  ; Towns, Clodagh 3   VIAFID ORCID Logo  ; Vitale, Dan 12 ; Chetty, Devina 4 ; Yu, Eric 13   VIAFID ORCID Logo  ; Grenn, Francis P. 8 ; Salazar, Gabriela 14 ; Rateau, Geoffrey 15 ; Iwaki, Hirotaka 12 ; Elsayed, Inas 16   VIAFID ORCID Logo  ; Foote, Isabelle Francesca 17 ; Jansen van Rensburg, Zuné 4 ; Kim, Jonggeol Jeff 18 ; Yuan, Jie 19 ; Lake, Julie 8   VIAFID ORCID Logo  ; Brolin, Kajsa 20   VIAFID ORCID Logo  ; Senkevich, Konstantin 21   VIAFID ORCID Logo  ; Wu, Lesley 3 ; Tan, Manuela M. X. 22   VIAFID ORCID Logo  ; Periñán, María Teresa 23 ; Makarious, Mary B. 24   VIAFID ORCID Logo  ; Ta, Michael 8 ; Pillay, Nikita Simone 25   VIAFID ORCID Logo  ; Betancor, Oswaldo Lorenzo 26   VIAFID ORCID Logo  ; Reyes-Pérez, Paula R. 27 ; Alvarez Jerez, Pilar 28 ; Saini, Prabhjyot 13 ; al-Ouran, Rami 29 ; Sivakumar, Ramiya 30 ; Real, Raquel 3   VIAFID ORCID Logo  ; Reynolds, Regina H. 31   VIAFID ORCID Logo  ; Hu, Ruifneg 19 ; Abrahams, Shameemah 4 ; Rao, Shilpa C. 32 ; Antar, Tarek 8 ; Leal, Thiago Peixoto 33 ; Iankova, Vassilena 34 ; Scotton, William J. 35   VIAFID ORCID Logo  ; Song, Yeajin 28 ; Singleton, Andrew 28   VIAFID ORCID Logo  ; Nalls, Mike A. 12 ; Dey, Sumit 11   VIAFID ORCID Logo  ; Bandres-Ciga, Sara 28 ; Blauwendraat, Cornelis 28   VIAFID ORCID Logo  ; Noyce, Alastair J. 11   VIAFID ORCID Logo 

1  National Institutes of Health, Laboratory of Neurogenetics, National Institute on Aging, Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165); National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Center for Alzheimer’s and Related Dementias (CARD), Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165); Data Tecnica International LLC, Washington, USA (GRID:grid.511118.d); German Center for Neurodegenerative Diseases (DZNE), Tübingen, Germany (GRID:grid.424247.3) (ISNI:0000 0004 0438 0426) 
2  National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Center for Alzheimer’s and Related Dementias (CARD), Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165) 
3  University College London, Department of Clinical and Movement Neurosciences, UCL Queen Square Institute of Neurology, London, UK (GRID:grid.83440.3b) (ISNI:0000000121901201) 
4  University College London, Department of Neuromuscular Diseases, UCL Queen Square Institute of Neurology, London, UK (GRID:grid.83440.3b) (ISNI:0000000121901201) 
5  Stellenbosch University, Division of Molecular Biology and Human Genetics, Department of Biomedical Sciences, Faculty of Medicine and Health Sciences, Cape Town, South Africa (GRID:grid.11956.3a) (ISNI:0000 0001 2214 904X); South African Medical Research Council/Stellenbosch University Genomics of Brain Disorders Research Unit, Stellenbosch University, Cape Town, South Africa (GRID:grid.11956.3a) (ISNI:0000 0001 2214 904X) 
6  University College London, Department of Neurodegenerative Disease, London, UK (GRID:grid.83440.3b) (ISNI:0000000121901201); University College London, Great Ormond Street Institute of Child Health, Genetics and Genomic Medicine, London, UK (GRID:grid.83440.3b) (ISNI:0000000121901201) 
7  German Center for Neurodegenerative Diseases (DZNE), Tübingen, Germany (GRID:grid.424247.3) (ISNI:0000 0004 0438 0426) 
8  National Institutes of Health, Laboratory of Neurogenetics, National Institute on Aging, Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165) 
9  Northwestern University, The Ken & Ruth Davee Department of Neurology and Simpson Querrey Center of Neurogenetics, Feinberg Feinberg School of Medicine, Chicago, USA (GRID:grid.16753.36) (ISNI:0000 0001 2299 3507) 
10  Icahn School of Medicine at Mount, Hess Center for Science and Medicine, Department of Genetics and Genomic Sciences and Mindich Child Health and Development Institute, New York, USA (GRID:grid.59734.3c) (ISNI:0000 0001 0670 2351) 
11  Queen Mary University of London, Preventive Neurology Unit, Wolfson Institute of Population Health, London, UK (GRID:grid.4868.2) (ISNI:0000 0001 2171 1133) 
12  National Institutes of Health, Laboratory of Neurogenetics, National Institute on Aging, Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165); National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Center for Alzheimer’s and Related Dementias (CARD), Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165); Data Tecnica International LLC, Washington, USA (GRID:grid.511118.d) 
13  McGill University, Department of Human Genetics, Montreal, Canada (GRID:grid.14709.3b) (ISNI:0000 0004 1936 8649); McGill University, The Neuro (Montreal Neurological Institute-Hospital), Montreal, Canada (GRID:grid.14709.3b) (ISNI:0000 0004 1936 8649) 
14  INNCOSYS, Col. Morelos Second Section, Toluca de Lerdo, México (GRID:grid.94365.3d) 
15  Institut du Cerveau - Institute of Brain and Spine (ICM), Hôpital Pitié, 47 Bd de l’Hôpital, Paris, France (GRID:grid.411439.a) (ISNI:0000 0001 2150 9058) 
16  University of Gezira, Faculty of pharmacy, Wad Medani, Sudan (GRID:grid.411683.9) (ISNI:0000 0001 0083 8856); University of Gezira, International Parkinson Disease Genomics Consortium (IPDGC)-Africa, Wad Medani, Sudan (GRID:grid.411683.9) (ISNI:0000 0001 0083 8856) 
17  Queen Mary University of London, Preventive Neurology Unit, Wolfson Institute of Population Health, London, UK (GRID:grid.4868.2) (ISNI:0000 0001 2171 1133); Queen Mary University of London, Unit for Psychological Medicine, Wolfson Institute of Population Health, London, UK (GRID:grid.4868.2) (ISNI:0000 0001 2171 1133) 
18  National Institutes of Health, Laboratory of Neurogenetics, National Institute on Aging, Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165); Queen Mary University of London, Preventive Neurology Unit, Wolfson Institute of Population Health, London, UK (GRID:grid.4868.2) (ISNI:0000 0001 2171 1133) 
19  Brigham and Women’s Hospital, Harvard Medical School, Center for Advanced Parkinson Research, Boston, USA (GRID:grid.62560.37) (ISNI:0000 0004 0378 8294) 
20  Lund University, Translational Neurogenetics Unit, Wallenberg Neuroscience Center, Department of Experimental Medical Science, Lund, Sweden (GRID:grid.4514.4) (ISNI:0000 0001 0930 2361) 
21  McGill University, Department of Human Genetics, Montreal, Canada (GRID:grid.14709.3b) (ISNI:0000 0004 1936 8649); McGill University, Department of Neurology and Neurosurgery, Montréal, Canada (GRID:grid.14709.3b) (ISNI:0000 0004 1936 8649) 
22  University College London, Department of Clinical and Movement Neurosciences, UCL Queen Square Institute of Neurology, London, UK (GRID:grid.83440.3b) (ISNI:0000000121901201); Oslo University Hospital, Department of Neurology, Oslo, Norway (GRID:grid.55325.34) (ISNI:0000 0004 0389 8485) 
23  Servicio de Neurología y Neurofisiología Clínica, Instituto de Biomedicina de Sevilla, Hospital Universitario Virgen del Rocío/CSIC/Universidad de Sevilla, Unidad de Trastornos del Movimiento, Seville, Spain (GRID:grid.414816.e) (ISNI:0000 0004 1773 7922); CIBERNED, Madrid, Spain (GRID:grid.418264.d) (ISNI:0000 0004 1762 4012) 
24  National Institutes of Health, Laboratory of Neurogenetics, National Institute on Aging, Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165); University College London, Department of Clinical and Movement Neurosciences, UCL Queen Square Institute of Neurology, London, UK (GRID:grid.83440.3b) (ISNI:0000000121901201) 
25  University of the Western Cape, South African National Bioinformatics Institute (SANBI), South African Medical Research Council Bioinformatics Unit, Bellville, South Africa (GRID:grid.8974.2) (ISNI:0000 0001 2156 8226) 
26  Veterans Affairs Puget Sound Health Care System, Seattle, USA (GRID:grid.413919.7) (ISNI:0000 0004 0420 6540); University of Washington School of Medicine, Department of Neurology, Seattle, USA (GRID:grid.34477.33) (ISNI:0000000122986657) 
27  Universidad Nacional Autónoma de, Laboratorio Internacional de Investigación sobre el Genoma Humano, México, México (GRID:grid.9486.3) (ISNI:0000 0001 2159 0001) 
28  National Institutes of Health, Laboratory of Neurogenetics, National Institute on Aging, Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165); National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Center for Alzheimer’s and Related Dementias (CARD), Bethesda, USA (GRID:grid.94365.3d) (ISNI:0000 0001 2297 5165) 
29  Baylor College of Medicine, Department of Pediatrics, Houston, USA (GRID:grid.39382.33) (ISNI:0000 0001 2160 926X) 
30  University of Southern California, Los Angeles, USA (GRID:grid.42505.36) (ISNI:0000 0001 2156 6853) 
31  South African Medical Research Council/Stellenbosch University Genomics of Brain Disorders Research Unit, Stellenbosch University, Cape Town, South Africa (GRID:grid.11956.3a) (ISNI:0000 0001 2214 904X); University College London, Department of Neurodegenerative Disease, London, UK (GRID:grid.83440.3b) (ISNI:0000000121901201) 
32  Cleveland Clinic Foundation, Department of Genomic Medicine, Lerner Research Institute, Cleveland, USA (GRID:grid.239578.2) (ISNI:0000 0001 0675 4725); Case Western Reserve University, Department of Molecular Medicine, Cleveland, USA (GRID:grid.67105.35) (ISNI:0000 0001 2164 3847) 
33  Cleveland Clinic Foundation, Department of Genomic Medicine, Lerner Research Institute, Cleveland, USA (GRID:grid.239578.2) (ISNI:0000 0001 0675 4725) 
34  University Hospital of Ludwig-Maximilians-Universität München, Department of Neurology With Friedrich Baur Institut, Munich, Germany (GRID:grid.5252.0) (ISNI:0000 0004 1936 973X) 
35  South African Medical Research Council/Stellenbosch University Genomics of Brain Disorders Research Unit, Stellenbosch University, Cape Town, South Africa (GRID:grid.11956.3a) (ISNI:0000 0001 2214 904X) 
Pages
33
Publication year
2023
Publication date
2023
Publisher
Nature Publishing Group
e-ISSN
23738057
Source type
Scholarly Journal
Language of publication
English
DOI
https://doi.org/10.1038/s41531-023-00472-6
ProQuest document ID
2782558036
Copyright
© The Author(s) 2023. corrected publication 2023. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.