CEDAR, an online resource for the reporting and exploration of complexome profiling data
Por:
van Strien J., Haupt A., Schulte U., Braun H.-P., Cabrera-Orefice A., Choudhary J.S., Evers F., Fernandez-Vizarra E., Guerrero-Castillo S., Kooij T.W.A., Páleníková P., Pardo M., Ugalde C., Wittig I., Wöhlbrand L., Brandt U., Arnold S., Huynen M.A.
Publicada:
1 ene 2021
Resumen:
Complexome profiling is an emerging ‘omics’ approach that systematically interrogates the composition of protein complexes (the complexome) of a sample, by combining biochemical separation of native protein complexes with mass-spectrometry based quantitation proteomics. The resulting fractionation profiles hold comprehensive information on the abundance and composition of the complexome, and have a high potential for reuse by experimental and computational researchers. However, the lack of a central resource that provides access to these data, reported with adequate descriptions and an analysis tool, has limited their reuse. Therefore, we established the ComplexomE profiling DAta Resource (CEDAR, www3.cmbi.umcn.nl/cedar/), an openly accessible database for depositing and exploring mass spectrometry data from complexome profiling studies. Compatibility and reusability of the data is ensured by a standardized data and reporting format containing the “minimum information required for a complexome profiling experiment” (MIACE). The data can be accessed through a user-friendly web interface, as well as programmatically using the REST API portal. Additionally, all complexome profiles available on CEDAR can be inspected directly on the website with the profile viewer tool that allows the detection of correlated profiles and inference of potential complexes. In conclusion, CEDAR is a unique, growing and invaluable resource for the study of protein complex composition and dynamics across biological systems. © 2021 The Authors
Filiaciones:
Center for Molecular and Biomolecular Informatics, Radboud Institute for Molecular Life Sciences, Radboud University Medical Center, Nijmegen, Netherlands
Institute of Physiology, Faculty of Medicine, University of Freiburg, Freiburg, 79104, Germany
Center for Biological Signalling Studies (BIOSS) and Center for Integrative Signalling Studies (CIBSS), Freiburg, 79104, Germany
Institute of Plant Genetics, Leibniz Universität Hannover, Herrenhäuser Str. 2, Hannover, 30419, Germany
Functional Proteomics, The Institute of Cancer Research, London, SW7 3RP, United Kingdom
Medical Microbiology, Radboud Institute for Molecular Life Sciences, Radboud University Medical Center, Nijmegen, Netherlands
MRC Mitochondrial Biology Unit, University of Cambridge, United Kingdom
University Children's
Hospital 12 de Octubre Research Institute, Madrid, 28041, Spain
Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER), Madrid, U723, Spain
Functional Proteomics, Medical School, Goethe-University, Frankfurt am Main, 60590, Germany
General and Molecular Microbiology, Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl von Ossietzky University of Oldenburg, Oldenburg, Germany
Radboud Center for Mitochondrial Medicine, Radboud University Medical Center, Nijmegen, Netherlands
All Open Access, Hybrid Gold
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