O. Kohlbacher, Eberhard Karls Universität Tübingen
Service center: Center for Integrative Bioinformatics – CIBI
The coronavirus pandemic leads to massive research efforts and an unprecedented deposition of scientific results in public databases and archives. Yet, publishers and journals lack resources to rigorously screen and peer review them. Consequently, the communication of sound scientific results to political decision-makers might be slowed down.
de.NBI personnel from CIBI/Tübingen are working with ELIXIR staff at the EML-EBI Hinxton to deploy reanalysis and quality control workflows in the EMBL Proteomics Identification Database (PRIDE) [1]. Using these analysis workflows results we were able to confirm results from a patient COVID study with different software and identification engines, thus adding an essential layer of confidence in this time of accelerated research. Processing workflows have been developed on the de.NBI cloud and build on tools and standards developed in three ELIXIR implementation studies [2,3,4].
[1] https://www.ebi.ac.uk/pride/archive/projects/PXD018682
[2] Extending open proteomics data analysis pipelines in the cloud: Additional tools and focus on scalability, supporting the dramatic growth of public proteomics data
[3] Comparison, benchmarking and dissemination of proteomics data analysis pipelines
[4] Crowd-sourcing the annotation of public proteomics datasets to improve data reusability