HMMpTM – Transmembrane Protein Topology Prediction using Phosphorylation and Glycosylation Site Prediction

HMMpTM

:: DESCRIPTION

HMMpTM is a Hidden Markov Model based method capable of predicting the topology of transmembrane proteins and the existence of kinase specific phosphorylation and N/O-linked glycosylation sites across the protein sequence.

::DEVELOPER

The Biophysics and Bioinformatics Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Biochim Biophys Acta. 2014 Feb;1844(2):316-22. doi: 10.1016/j.bbapap.2013.11.001. Epub 2013 Nov 10.
HMMpTM: improving transmembrane protein topology prediction using phosphorylation and glycosylation site prediction.
Tsaousis GN, Bagos PG, Hamodrakas SJ.

GlycoMine – Predicting N-, C- and O-linked glycosylation in the Human Proteome

GlycoMine

:: 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

GlycoMine

:: REQUIREMENTS

  • Linux/MacOsX/ Windows
  • Java

:: DOWNLOAD

 GlycoMine

:: 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.

NGlycPred – N-linked Glycosylation Prediction Server Incorporating Structural Information and Patterns

NGlycPred

:: DESCRIPTION

NGlycPred predicts the glycan occupancy of N-X-T/S sequons of eukaryotic proteins.

::DEVELOPER

Vaccine Research Center

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Bioinformatics. 2012 Sep 1;28(17):2249-55. doi: 10.1093/bioinformatics/bts426. Epub 2012 Jul 10.
Computational prediction of N-linked glycosylation incorporating structural properties and patterns.
Chuang GY1, Boyington JC, Joyce MG, Zhu J, Nabel GJ, Kwong PD, Georgiev I.

YinOYang 1.2 – O-(beta)-GlcNAc Glycosylation and Yin-Yang Sites

YinOYang 1.2

:: DESCRIPTION

YinOYang produces neural network predictions for O-ß-GlcNAc attachment sites in eukaryotic protein sequences.

::DEVELOPER

CBS (Center for Biological Sequence Analysis),  Technical University of Denmark

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

YinOYang

:: MORE INFORMATION

Citation

Prediction of glycosylation across the human proteome and the correlation to protein function.
Gupta, R. and S. Brunak.
Pacific Symposium on Biocomputing, 7:310-322, 2002.