PTM Related Resources

PTM : Glycosylation        Type : Tool

EnsembleGly
Resource Type : Tool
Description :
BACKGROUND: Glycosylation is one of the most complex post-translational modifications (PTMs) of proteins in eukaryotic cells. Glycosylation plays an important role in biological processes ranging from protein folding and subcellular localization, to ligand recognition and cell-cell interactions. Exp ...
Taxonomy : N/A
Visit : http://turing.cs.iastate.edu/EnsembleGly/

Publication Information

Article : Glycosylation site prediction using ensembles of Support Vector Machine classifiers.
Author : Cornelia Caragea, Jivko Sinapov, Adrian Silvescu, Drena Dobbs and Vasant Honavar
Years : 2007
PubMed : 17996106

GlycoMine
Resource Type : Tool
Description :
Glycosylation is a ubiquitous type of protein post-translational modification (PTM) in eukaryotic cells, which plays vital roles in various biological processes such as cellular communication, ligand recognition, and subcellular recognition. It is estimated that >50% of the entire human proteome is ...
Taxonomy : N/A
Visit : http://www.structbioinfor.org/Lab/GlycoMine/

Publication Information

Article : GlycoMine: a machine learning-based approach for predicting N-, C- and O-linked glycosylation in the human proteome.
Author : Fuyi Li, Chen Li, Mingjun Wang, Geoffrey I. Webb, Yang Zhang, James C. Whisstock and Jiangning Song
Years : 2015
PubMed : 25568279

GlycoPP
Resource Type : Tool
Description :
Glycosylation is a ubiquitous type of protein post-translational modification (PTM) in eukaryotic cells, which plays vital roles in various biological processes such as cellular communication, ligand recognition, and subcellular recognition. It is estimated that >50% of the entire human proteome is ...
Taxonomy : Archaea, Bacteria
Visit : http://www.imtech.res.in/raghava/glycopp/

Publication Information

Article : GlycoPP: a webserver for prediction of N- and O-glycosites in prokaryotic protein sequences.
Author : Jagat S. Chauhan, Adil H. Bhat, Gajendra P. S. Raghava , Alka Rao
Years : 2012
PubMed : 22808107

GPP
Resource Type : Tool
Description :
Ab Initio Calculations of the Electronic Excited States of Molecules, Electronic Structure and Circular Dichroism of Proteins, Protein Folding and Evolution, Bioinformatics, Computer-Aided Drug Design, Drug Resistance. Please follow the links to publications on the respective topic. ...
Taxonomy : N/A
Visit : http://comp.chem.nottingham.ac.uk/glyco/

Publication Information

Article : Prediction of glycosylation sites using random forests.
Author : Stephen E Hamby and Jonathan D Hirst
Years : 2008
PubMed : 19038042

GS-align
Resource Type : Tool
Description :
Glycans play critical roles in many biological processes, and their structural diversity is key for specific protein-glycan recognition. GS-align is a novel computational method for glycan structure alignment and similarity measurement. GS-align generates possible alignments between two glycan struc ...
Taxonomy : N/A
Visit : http://www.glycanstructure.org/gsalign

Publication Information

Article : GS-align for glycan structure alignment and similarity measurement.
Author : Hui Sun Lee, Sunhwan Jo, Srayanta Mukherjee, Sang-Jun Park, Jeffrey Skolnick, Jooyoung Lee and Wonpil Im
Years : 2015
PubMed : 25857669

GlycoEP
Resource Type : Tool
Description :
Glycosylation is one of the most abundant and an important post-translational modification of proteins. Glycosylated proteins (glycoproteins) are involved in various cellular biological functions like protein folding, cell-cell interactions, cell recognition and host-pathogen interactions. A large n ...
Taxonomy : Eukaryota
Visit : http://www.imtech.res.in/raghava/glycoep

Publication Information

Article : In silico Platform for Prediction of N-, O- and C-Glycosites in Eukaryotic Protein Sequences
Author : Jagat Singh Chauhan, Alka Rao, Gajendra P. S. Raghava
Years : 2013
PubMed : 23840574

NetNGlyc
Resource Type : Tool
Description :
The Center for Biological Sequence Analysis at the Technical University of Denmark was formed in 1993, and conducts basic research in the field of bioinformatics and systems biology. The group of +90 scientists, working in ten specialist research groups, has a highly multi-disciplinary profile (mole ...
Taxonomy : Eukaryota, Animals
Visit : http://www.cbs.dtu.dk/services/NetNGlyc/

Publication Information

Article : NetNGlyc: Prediction of N-glycosylation sites in human proteins
Author : R Gupta, E Jung, S Brunak
Years : 2004
PubMed :

GECS
Resource Type : Tool
Description :
About GECS GECS (Gene Expression to Chemical Structure) is a collection of prediction methods linking genomic or transcriptomic contents of genes to chemical structures of biosynthetic substances. This N-Glycan Prediction Server is based on the repertoire of glycosyltransferases for N-glycan biosyn ...
Taxonomy : N/A
Visit : http://www.genome.jp/tools/gecs/

Publication Information

Article : Prediction of glycan structures from gene expression data based on glycosyltransferase reactions
Author : Shin Kawano, Kosuke Hashimoto, Takashi Miyama, Susumu Goto and Minoru Kanehisa
Years : 2005
PubMed : 16159923

NetOGlyc
Resource Type : Tool
Description :
The Center for Biological Sequence Analysis at the Technical University of Denmark was formed in 1993, and conducts basic research in the field of bioinformatics and systems biology. The group of +90 scientists, working in ten specialist research groups, has a highly multi-disciplinary profile (mole ...
Taxonomy : Eukaryota, Animals
Visit : http://www.cbs.dtu.dk/services/NetOGlyc/

Publication Information

Article : Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology.
Author : Catharina Steentoft, Sergey Y Vakhrushev, Hiren J Joshi, Yun Kong, Malene B Vester?Christensen, Katrine T?B G Schjoldager, Kirstine Lavrsen, Sally Dabelsteen, Nis B Pedersen, Lara Marcos?Silva, Ramneek Gupta, Eric Paul Bennett, Ulla Mandel, Søren Brunak, Hans H Wandall, Steven B Levery, Henrik Clausen
Years : 2013
PubMed : 23584533

Oglyc
Resource Type : Tool
Description :
O-glycosylation is one of the most important, frequent and complex post-translational modifications. This modification can activate and affect protein functions. Here, we present three support vector machines models based on physical properties, 0/1 system, and the system combining the above two fea ...
Taxonomy : N/A
Visit : http://www.biosino.org/Oglyc/

Publication Information

Article : Predicting  O-glycosylation sites in mammalian proteins by using SVMs
Author : Sujun Li, Boshu Liu, Rong Zeng, Yudong Cai, Yixue Li
Years : 2006
PubMed : 16731044