GlycoMine: a machine learning-based approach for predicting N-, C- and O-linked glycosylation in the human proteome

Classification of Non-Small Cell Lung Cancer Based on Copy Number Alterations

(2014) Bi-Qing Li et al.   PLoS One

Incorporating key position and amino acid residue features to identify general and species-specific Ubiquitin conjugation sites

(2013) Xiang Chen et al.   BIOINFORMATICS

Cascleave 2.0, a new approach for predicting caspase and granzyme cleavage targets

(2013) Mingjun Wang et al.   BIOINFORMATICS

Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology

(2013) Catharina Steentoft et al.   EMBO JOURNAL

In silico Platform for Prediction of N-, O- and C-Glycosites in Eukaryotic Protein Sequences

(2013) Jagat Singh Chauhan et al.   PLoS One

Computational prediction of N-linked glycosylation incorporating structural properties and patterns

(2012) Gwo-Yu Chuang et al.   BIOINFORMATICS

InterPro in 2011: new developments in the family and domain prediction database

(2012) S. Hunter et al.   NUCLEIC ACIDS RESEARCH

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

(2012) Andrea Franceschini et al.   NUCLEIC ACIDS RESEARCH

Prediction of Protein Cleavage Site with Feature Selection by Random Forest

(2012) Bi-Qing Li et al.   PLoS One

PROSPER: An Integrated Feature-Based Tool for Predicting Protease Substrate Cleavage Sites

(2012) Jiangning Song et al.   PLoS One

Computational prediction of eukaryotic phosphorylation sites

(2011) B. Trost et al.   BIOINFORMATICS

Protection from Endogenous Perforin: Glycans and the C Terminus Regulate Exocytic Trafficking in Cytotoxic Lymphocytes

(2011) Amelia J. Brennan et al.   IMMUNITY

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

Integrating Bioinformatics Tools to Handle Glycosylation

(2011) Yuliet Mazola et al.   PLoS Computational Biology

CD-HIT Suite: a web server for clustering and comparing biological sequences

(2010) Ying Huang et al.   BIOINFORMATICS

Glycomics Hits the Big Time

(2010) Gerald W. Hart et al.   CELL

DOG 1.0: illustrator of protein domain structures

(2009) Jian Ren et al.   CELL RESEARCH

Glycoproteomics Analysis of Human Liver Tissue by Combination of Multiple Enzyme Digestion and Hydrazide Chemistry

(2009) Rui Chen et al.   JOURNAL OF PROTEOME RESEARCH

BioJava: an open-source framework for bioinformatics

(2008) R. C. G. Holland et al.   BIOINFORMATICS

Prediction of mucin-type O-glycosylation sites in mammalian proteins using the composition of k-spaced amino acid pairs

(2008) Yong-Zi Chen et al.   BMC BIOINFORMATICS

Prediction of glycosylation sites using random forests

(2008) Stephen E Hamby et al.   BMC BIOINFORMATICS

Mass Spectrometry and the Emerging Field of Glycomics

(2008) Joseph Zaia   CHEMISTRY & BIOLOGY

Prediction of protein structural class using novel evolutionary collocation-based sequence representation

(2008) Ke Chen et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Prediction of integral membrane protein type by collocated hydrophobic amino acid pairs

(2008) Ke Chen et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Improving the prediction accuracy of residue solvent accessibility and real-value backbone torsion angles of proteins by guided-learning through a two-layer neural network

(2008) Eshel Faraggi et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS