Nature Communications (Sep 2016)
Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd
- Zichen Wang,
- Caroline D. Monteiro,
- Kathleen M. Jagodnik,
- Nicolas F. Fernandez,
- Gregory W. Gundersen,
- Andrew D. Rouillard,
- Sherry L. Jenkins,
- Axel S. Feldmann,
- Kevin S. Hu,
- Michael G. McDermott,
- Qiaonan Duan,
- Neil R. Clark,
- Matthew R. Jones,
- Yan Kou,
- Troy Goff,
- Holly Woodland,
- Fabio M R. Amaral,
- Gregory L. Szeto,
- Oliver Fuchs,
- Sophia M. Schüssler-Fiorenza Rose,
- Shvetank Sharma,
- Uwe Schwartz,
- Xabier Bengoetxea Bausela,
- Maciej Szymkiewicz,
- Vasileios Maroulis,
- Anton Salykin,
- Carolina M. Barra,
- Candice D. Kruth,
- Nicholas J. Bongio,
- Vaibhav Mathur,
- Radmila D Todoric,
- Udi E. Rubin,
- Apostolos Malatras,
- Carl T. Fulp,
- John A. Galindo,
- Ruta Motiejunaite,
- Christoph Jüschke,
- Philip C. Dishuck,
- Katharina Lahl,
- Mohieddin Jafari,
- Sara Aibar,
- Apostolos Zaravinos,
- Linda H. Steenhuizen,
- Lindsey R. Allison,
- Pablo Gamallo,
- Fernando de Andres Segura,
- Tyler Dae Devlin,
- Vicente Pérez-García,
- Avi Ma’ayan
Affiliations
- Zichen Wang
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Caroline D. Monteiro
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Kathleen M. Jagodnik
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Nicolas F. Fernandez
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Gregory W. Gundersen
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Andrew D. Rouillard
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Sherry L. Jenkins
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Axel S. Feldmann
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Kevin S. Hu
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Michael G. McDermott
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Qiaonan Duan
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Neil R. Clark
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Matthew R. Jones
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Yan Kou
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Troy Goff
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- Holly Woodland
- Daylesford, the Fairway
- Fabio M R. Amaral
- School of Biosciences, University of Nottingham, Sutton Bonington Campus
- Gregory L. Szeto
- Department of Biological Engineering, Massachusetts Institute of Technology
- Oliver Fuchs
- Paediatric Allergology and Pulmonology, Dr von Hauner University Children’s Hospital, Ludwig-Maximilians-University of Munich, Member of the German Centre for Lung Research (DZL)
- Sophia M. Schüssler-Fiorenza Rose
- Spinal Cord Injury Service, Veteran Affairs Palo Alto Health Care System
- Shvetank Sharma
- Department of Research, Institute of Liver & Biliary Sciences
- Uwe Schwartz
- Department of Biochemistry III, University of Regensburg
- Xabier Bengoetxea Bausela
- Department of Pharmacology and Toxicology, University of Navarra
- Maciej Szymkiewicz
- Warsaw School of Information Technology under the auspices of the Polish Academy of Sciences
- Vasileios Maroulis
- Anton Salykin
- Department of Biology, Faculty of Medicine, Masaryk University
- Carolina M. Barra
- IMIM-Hospital Del Mar, PRBB Barcelona, Dr Aiguader
- Candice D. Kruth
- Nicholas J. Bongio
- Department of Biology, Shenandoah University
- Vaibhav Mathur
- IBM India Pvt Ltd.
- Radmila D Todoric
- Udi E. Rubin
- Department of Biological Sciences
- Apostolos Malatras
- Center for Research in Myology, Sorbonne Universités, UPMC Univ Paris 06, INSERM UMRS975, CNRS FRE3617
- Carl T. Fulp
- John A. Galindo
- Department of Biology and Institute of Genetics, Universidad Nacional de Colombia
- Ruta Motiejunaite
- Center for Interdisciplinary Cardiovascular Sciences, Brigham and Women’s Hospital
- Christoph Jüschke
- Department of Human Genetics, Faculty of Medicine and Health Sciences, University of Oldenburg
- Philip C. Dishuck
- Katharina Lahl
- Technical University of Denmark, National Veterinary Institute
- Mohieddin Jafari
- Protein Chemistry and Proteomics Unit, Biotechnology Research Center, Pasteur Institute of Iran
- Sara Aibar
- University of Salamanca
- Apostolos Zaravinos
- Division of Clinical Immunology, Department of Laboratory Medicine, Karolinska Institute
- Linda H. Steenhuizen
- Anna Blamansingel 216
- Lindsey R. Allison
- Pablo Gamallo
- Fernando de Andres Segura
- CICAB, Clinical Research Centre, Extremadura University Hospital
- Tyler Dae Devlin
- Vicente Pérez-García
- Department of Immunology and Oncology, Consejo Superior de Investigaciones Científicas, Centro Nacional de Biotecnología
- Avi Ma’ayan
- Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Illuminating the Druggable Genome Knowledge Management Center, Icahn School of Medicine at Mount Sinai
- DOI
- https://doi.org/10.1038/ncomms12846
- Journal volume & issue
-
Vol. 7,
no. 1
pp. 1 – 11
Abstract
A wealth of gene expression data is publicly available, yet is little use without additional human curation. Ma’ayan and colleagues report a crowdsourcing project involving over 70 participants to annotate and analyse thousands of human disease-related gene expression datasets.
