:: DESCRIPTION
GlycoMine is a machine learning-based approach for predicting N-, C- and O-linked glycosylation in the human proteome
::DEVELOPER
Jiangning Song, Ph.D.
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
GlycoMine: a machine learning-based approach for predicting N-, C- and O-linked glycosylation in the human proteome.
Li F, Li C, Wang M, Webb GI, Zhang Y, Whisstock JC, Song J.
Bioinformatics. 2015 Jan 6. pii: btu852.
:: DESCRIPTION
UbiBrowser is a comprehensive resource for proteome-wide ubiquitin ligase (E3)/deubiquitinase (DUB) – substrate interactions in eukaryotic species. The E3/DUB-substrate interactions are derived from five data sources: manual curation, protein GO annotation, protein domain, protein motif and network topology.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
Li Y, Xie P, Lu L, Wang J, Diao L, Liu Z, Guo F, He Y, Liu Y, Huang Q, Liang H, Li D, He F.
An integrated bioinformatics platform for investigating the human E3 ubiquitin ligase-substrate interaction network.
Nat Commun. 2017 Aug 24;8(1):347. doi: 10.1038/s41467-017-00299-9. PMID: 28839186; PMCID: PMC5570908.
:: DESCRIPTION
M2Lite is a lightweight, easily pluggable, and extremely fast conversion software tool. M2Lite converts msf files to the proteomics community standard mzIdentML file format.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
J Bioinform. 2014 Apr 28;1(2):40-49.
M2Lite: An Open-source, Light-weight, Pluggable and Fast Proteome Discoverer MSF to mzIdentML Tool.
Aiyetan P, Zhang B, Chen L, Zhang Z, Zhang H
:: DESCRIPTION
mutation3D is a functional prediction and visualization tool for studying the spatial arrangement of amino acid substitutions on protein models and structures.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
Tardigrade Analyzer offers nucleotide pattern analysis for promotor and regulatory element detection (tardigrade specific; nrdb) as well as rapid COG search for function assignments including species-specific repositories of all analysed data.
::DEVELOPER
the Department of Bioinformatics at the University of Würzburg
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
BMC Genomics. 2009 Oct 12;10:469. doi: 10.1186/1471-2164-10-469.
Tardigrade workbench: comparing stress-related proteins, sequence-similar and functional protein clusters as well as RNA elements in tardigrades.
Förster F, Liang C, Shkumatov A, Beisser D, Engelmann JC, Schn?lzer M, Frohme M, Müller T, Schill RO, Dandekar T.
:: DESCRIPTION
CanProVar is designed to store and display single amino acid alterations including both germline and somatic variations in the human proteome, especially those related to the genesis or development of human cancer based on the published literatures.
::DEVELOPER
:: SCREENSHOTS
n/a
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
CanProVar 2.0: An Updated Database of Human Cancer Proteome Variation.
Zhang M, Wang B, Xu J, Wang X, Xie L, Zhang B, Li Y, Li J.
J Proteome Res. 2017 Feb 3;16(2):421-432. doi: 10.1021/acs.jproteome.6b00505.
:: DESCRIPTION
FCP is a publicly accessible web tool dedicated to analysing the current state and trends on the population of available structures along the classification schemes of enzymes (specially kinases and proteases), G protein-coupled receptors, nuclear receptors and transporters/channels, offering both graphical and quantitative data on the degree of functional coverage in that portion of the proteome by existing structures, as well as on the bias observed in the distribution of those structures among proteins.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
No
:: MORE INFORMATION
Citation
FCP: functional coverage of the proteome by structures.
García-Serna R, Opatowski L, Mestres J.
Bioinformatics. 2006 Jul 15;22(14):1792-3. Epub 2006 May 16.