ProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessment - Archive ouverte HAL Access content directly
Journal Articles Bioinformatics Year : 2020

ProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessment

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Abstract

Motivation We present a high-performance software integrating shotgun with top-down proteomic data. The tool can deal with multiple experiments and search engines. Enable rapid and easy visualization, manual validation and comparison of the identified proteoform sequences including the post-translational modification characterization. Results We demonstrate the effectiveness of our approach on a large-scale Escherichia coli dataset; ProteoCombiner unambiguously shortlisted proteoforms among those identified by the multiple search engines. Availability and implementation ProteoCombiner, a demonstration video and user tutorial are freely available at https://proteocombiner.pasteur.fr, for academic use; all data are thus available from the ProteomeXchange consortium (identifier PXD017618).
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Dates and versions

pasteur-03014113 , version 1 (19-11-2020)

Identifiers

Cite

Diogo Lima, Mathieu Dupré, Magalie Duchateau, Quentin Giai Gianetto, Martial Jean-Pierre Rey, et al.. ProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessment. Bioinformatics, 2020, pp.btaa958. ⟨10.1093/bioinformatics/btaa958⟩. ⟨pasteur-03014113⟩
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