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The third international hackathon for applying insights into large-scale genomic composition to use cases in a wide range of organisms.
Walker, Kimberly; Kalra, Divya; Lowdon, Rebecca; Chen, Guangyi; Molik, David; Soto, Daniela C; Dabbaghie, Fawaz; Khleifat, Ahmad Al; Mahmoud, Medhat; Paulin, Luis F; Raza, Muhammad Sohail; Pfeifer, Susanne P; Agustinho, Daniel Paiva; Aliyev, Elbay; Avdeyev, Pavel; Barrozo, Enrico R; Behera, Sairam; Billingsley, Kimberley; Chong, Li Chuin; Choubey, Deepak; De Coster, Wouter; Fu, Yilei; Gener, Alejandro R; Hefferon, Timothy; Henke, David Morgan; Höps, Wolfram; Illarionova, Anastasia; Jochum, Michael D; Jose, Maria; Kesharwani, Rupesh K; Kolora, Sree Rohit Raj; Kubica, Jedrzej; Lakra, Priya; Lattimer, Damaris; Liew, Chia-Sin; Lo, Bai-Wei; Lo, Chunhsuan; Lötter, Anneri; Majidian, Sina; Mendem, Suresh Kumar; Mondal, Rajarshi; Ohmiya, Hiroko; Parvin, Nasrin; Peralta, Carolina; Poon, Chi-Lam; Prabhakaran, Ramanandan; Saitou, Marie; Sammi, Aditi; Sanio, Philippe; Sapoval, Nicolae.
Affiliation
  • Walker K; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Kalra D; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Lowdon R; Bayer Crop Science, Chesterfield, MO, 63017, USA.
  • Chen G; Drug Bioinformatics, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Saarbrücken, Germany.
  • Molik D; Center for Bioinformatics, Saarland University, Saarbrücken, Germany.
  • Soto DC; Tropical Crop and Commodity Protection Research Unit, Pacific Basin Agricultural Research Center, Hilo, HI, 96720, USA.
  • Dabbaghie F; Biochemistry & Molecular Medicine, Genome Center, MIND Institute, University of California, Davis, Davis, CA, 95616, USA.
  • Khleifat AA; Drug Bioinformatics, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Saarbrücken, Germany.
  • Mahmoud M; Institute for Medical Biometry and Bioinformatics, University hospital Düsseldorf, Düsseldorf, Germany.
  • Paulin LF; Institute of Psychiatry, Psychology & Neuroscience, King's College London, London, UK.
  • Raza MS; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Pfeifer SP; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Agustinho DP; CAS Key Laboratory of Genomic and Precision Medicine, Beijing Institute of Genomics, Beijing, China.
  • Aliyev E; Center for Evolution and Medicine, Arizona State University, Tempe, AZ, USA.
  • Avdeyev P; Department of Molecular Microbiology, Washington University in St. Louis School of Medicine, St. Louis, MO, 63110, USA.
  • Barrozo ER; Research Department, Sidra Medicine, Doha, Qatar.
  • Behera S; Computational Biology Institute, The George Washington University, Washington, DC, 20052, USA.
  • Billingsley K; Department of Obstetrics & Gynecology, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Chong LC; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Choubey D; Molecular Genetics Section, Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, USA.
  • De Coster W; Beykoz Institute of Life Sciences and Biotechnology, Bezmialem Vakif University, Beykoz, Istanbul, Turkey.
  • Fu Y; Department of Technology, Savitribai Phule Pune University, Pune, Maharashtra, India.
  • Gener AR; Applied and Translational Neurogenomics Group, VIB Center for Molecular Neurology, Antwerp, Belgium.
  • Hefferon T; Applied and Translational Neurogenomics Group, Department of Biomedical Sciences, University of Antwerp, Antwerp, Belgium.
  • Henke DM; Department of Computer Science, Rice University, Houston, TX, USA.
  • Höps W; Association of Public Health Labs, Centers for Disease Control and Prevention, Downey, CA, USA.
  • Illarionova A; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, 20892, USA.
  • Jochum MD; Department Molecular Virology and Microbiology, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Jose M; EMBL Heidelberg, Genome Biology Unit, Heidelberg, Germany.
  • Kesharwani RK; German Center for Neurodegenerative Diseases (DZNE), Tübingen, Germany.
  • Kolora SRR; Department of Obstetrics & Gynecology, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Kubica J; Centre for Bioinformatics, Pondicherry University, Pondicherry, India.
  • Lakra P; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, 77030, USA.
  • Lattimer D; University of California Berkeley, Berkeley, CA, USA.
  • Liew CS; University of Warsaw, Warsaw, Poland.
  • Lo BW; Department of Zoology, University of Delhi, Delhi, India.
  • Lo C; University of Applied Sciences Upper Austria - FH Hagenberg, Mühlkreis, Austria.
  • Lötter A; Center for Biotechnology, University of Nebraska-Lincoln, Lincoln, Nebraska, 68588, USA.
  • Majidian S; Department of Biology, University of Konstanz, Konstanz, Germany.
  • Mendem SK; Human Genetics Laboratory, National Institute of Genetics, Japan, Mishima City, Japan.
  • Mondal R; Department of Biochemistry, University of Pretoria, Pretoria, South Africa.
  • Ohmiya H; Department of Computational Biology, University of Lausanne, Lausanne, Switzerland.
  • Parvin N; ICAR-NIVEDI, Bangalore, Karnataka, India.
  • Peralta C; Department of Biotechnology, The University of Burdwan, West Bengal, India.
  • Poon CL; Genetic Reagent Development Unit, Medical & Biological Laboratories Co., Ltd., Tokoyo, Japan.
  • Prabhakaran R; Department of Biotechnology, The University of Burdwan, West Bengal, India.
  • Saitou M; Max Planck Institute for Evolutionary Biology, Plon, Germany.
  • Sammi A; Weill Cornell Medicine, New York, NY, USA.
  • Sanio P; Hoffmann-La Roche Limited, Regions, Diagnostics & Research (RDR), Mississauga, Canada.
  • Sapoval N; Center of Integrative Genetics (CIGENE),Faculty of Biosciences, Norwegian University of Life Sciences, As, Norway.
F1000Res ; 11: 530, 2022.
Article in En | MEDLINE | ID: mdl-36262335
ABSTRACT
In October 2021, 59 scientists from 14 countries and 13 U.S. states collaborated virtually in the Third Annual Baylor College of Medicine & DNANexus Structural Variation hackathon. The goal of the hackathon was to advance research on structural variants (SVs) by prototyping and iterating on open-source software. This led to nine hackathon projects focused on diverse genomics research interests, including various SV discovery and genotyping methods, SV sequence reconstruction, and clinically relevant structural variation, including SARS-CoV-2 variants. Repositories for the projects that participated in the hackathon are available at https//github.com/collaborativebioinformatics.
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Limits: Humans Language: En Journal: F1000Res Year: 2022 Document type: Article Affiliation country:
Fulltext
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Limits: Humans Language: En Journal: F1000Res Year: 2022 Document type: Article Affiliation country: