Dataset Information

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

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 differentially expressed proteins. We also introduce the deployment of the Docker technology and significantly increase the speed of a full analysis. ProteoSign v2 is available at http://bioinformatics.med.uoc.gr/ProteoSign.

SUBMITTER: Theodorakis E

PROVIDER: S-EPMC8262687 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature

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

Theodorakis Evangelos E Antonakis Andreas N AN Baltsavia Ismini I Pavlopoulos Georgios A GA Samiotaki Martina M Amoutzias Grigoris D GD Theodosiou Theodosios T Acuto Oreste O Efstathiou Georgios G Iliopoulos Ioannis I

Nucleic acids research 20210701 W1

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 ...[more]

PMID: 33963869

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Dataset Information

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

Publications

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

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