ProteoSign v2: a faster and evolved user-friendly online tool for statistical analyses of differential proteomics.

Nucleic Acids Research
Evangelos TheodorakisIoannis Iliopoulos

Abstract

Bottom-up proteomics analyses have been proved over the last years to be a powerful tool in the characterization of the proteome and are crucial for understanding cellular and organism behaviour. Through differential proteomic analysis researchers can shed light on groups of proteins or individual proteins that play key roles in certain, normal or pathological conditions. However, several tools for the analysis of such complex datasets are powerful, but hard-to-use with steep learning curves. In addition, some other tools are easy to use, but are weak in terms of analytical power. Previously, we have introduced ProteoSign, a powerful, yet user-friendly open-source online platform for protein differential expression/abundance analysis designed with the end-proteomics user in mind. Part of Proteosign's power stems from the utilization of the well-established Linear Models For Microarray Data (LIMMA) methodology. Here, we present a substantial upgrade of this computational resource, called ProteoSign v2, where we introduce major improvements, also based on user feedback. The new version offers more plot options, supports additional experimental designs, analyzes updated input datasets and performs a gene enrichment analysis of the...Continue Reading

References

Sep 18, 1998·Electrophoresis·N L Anderson, N G Anderson
Sep 24, 2004·Molecular & Cellular Proteomics : MCP·Philip L RossDarryl J Pappin
May 6, 2008·Bioinformatics·Ashoka D PolpitiyaRichard D Smith
Dec 5, 2008·Proteomics·Björn SchwanhäusserMatthias Selbach
Aug 24, 2011·Molecular & Cellular Proteomics : MCP·Ruijun TianDaniel Figeys
May 28, 2014·Nucleic Acids Research·Arnold Kuzniar, Roland Kanaar
Apr 19, 2016·Journal of Proteome Research·Kenneth BryanDavid J Lynn
Jun 28, 2016·Nature Methods·Stefka TyanovaJürgen Cox
May 19, 2017·Nucleic Acids Research·Georgios EfstathiouIoannis Iliopoulos
Jan 11, 2020·Nature Communications·Yangyang BianBernhard Kuster
Jul 17, 2020·Computational and Structural Biotechnology Journal·George MinadakisGeorge M Spyrou

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