ProteoRE

Public server:	ProteoRE Galaxy
Scope:	Domain specific
Summary:	ProteoRE (Proteomics Research Environment)

Comments

"ProteoRE (Proteomics Research Environment) aims at centrally providing the proteomics community with an online research service enabling biologists/clinicians without programming expertise to annotate and interpret their proteomics data through the Web."
ProteoRE currently comprises tools (including graphical display) for:
Customary data manipulation (e.g. filtering, lists comparison, ID conversion…)
Protein list annotation (e.g. information retrieval from public resources - human species)
Functional analysis (e.g. GOterms frequencies, enrichment analysis) including graphical representation.
Pathway analysis (e.g. Reactome)
This version also includes Galaxy generic tools and some tools from the GalaxyP project that should be of great help for people who want to (re)process their MS-based proteomics data (e.g. peptide/protein identification).
ProteoRE tools in the Galaxy Toolshed

Unregistered user: allocated storage space is limited to 20 Mb and is not conserved between sessions.
Registered user: up to 20 Gb per registered user

Designing an In Silico Strategy to Select Tissue-Leakage Biomarkers Using the Galaxy Framework, Nguyen L., Brun V., Combes F., Loux V., Vandenbrouck Y. (2019) In: Brun V., Couté Y. (eds) Proteomics for Biomarker Discovery. Methods in Molecular Biology, vol 1959. Humana Press, New York, NY
P17: ProteoRE, a Galaxy-based infrastructure for interpreting and exploring mass spectrometry-based proteomics data, GCC2017 poster presentation, Lien Nguyen, Maud Lacombe, Sandra Dérozier, Lisa Perus, Olivier Rué, Florence Combes, Christophe Caron, Virginie Brun, Valentin Loux, Yves Vandenbrouck
ProteoRE tagged publications in the Galaxy Publication library