CEDAR, an online resource for the reporting and exploration of complexome profiling data

authored by

Joeri van Strien, Alexander Haupt, Uwe Schulte, Hans-Peter Braun, Alfredo Cabrera-Orefice, Jyoti S Choudhary, Felix Evers, Erika Fernandez-Vizarra, Sergio Guerrero-Castillo, Taco W A Kooij, Petra Páleníková, Mercedes Pardo, Cristina Ugalde, Ilka Wittig, Lars Wöhlbrand, Ulrich Brandt, Susanne Arnold, Martijn A Huynen

Abstract

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.

Organisation(s)

Institute of Plant Genetics

External Organisation(s)

Radboud University Medical Center
University of Freiburg
Institute of Cancer Research
University of Cambridge
University Medical Center Hamburg-Eppendorf
Comunidad de Madrid
Goethe University Frankfurt
Carl von Ossietzky University of Oldenburg

Type

Article

Journal

Biochimica et Biophysica Acta - Bioenergetics

Volume

1862

ISSN

0005-2728

Publication date

01.07.2021

Publication status

Published

Peer reviewed

Yes

ASJC Scopus subject areas

Biophysics, Biochemistry, Cell Biology

Electronic version(s)

https://doi.org/10.1016/j.bbabio.2021.148411 (Access: Open)
https://doi.org/10.15488/11674 (Access: Open)