Accurate in silico identification of species-specific acetylation sites by integrating protein sequence-derived and functional features

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

(2013) Mingjun Wang et al.   BIOINFORMATICS

Proteome-wide Analysis of Amino Acid Variations That Influence Protein Lysine Acetylation

(2013) Sheng-Bao Suo et al.   JOURNAL OF PROTEOME RESEARCH

A holistic in silico approach to predict functional sites in protein structures

(2012) Joan Segura et al.   BIOINFORMATICS

Mechanistic insights into the regulation of metabolic enzymes by acetylation

(2012) Yue Xiong et al.   JOURNAL OF CELL BIOLOGY

Systematic analysis of human lysine acetylation proteins and accurate prediction of human lysine acetylation through bi-relative adapted binomial score Bayes feature representation

(2012) Jianlin Shao et al.   Molecular BioSystems

PLMLA: prediction of lysine methylation and lysine acetylation by combining multiple features

(2012) Shao-Ping Shi et al.   Molecular BioSystems

ASEB: a web server for KAT-specific acetylation site prediction

(2012) L. Wang et al.   NUCLEIC ACIDS RESEARCH

TANGLE: Two-Level Support Vector Regression Approach for Protein Backbone Torsion Angle Prediction from Primary Sequences

(2012) Jiangning Song et al.   PLoS One

FunSAV: Predicting the Functional Effect of Single Amino Acid Variants Using a Two-Stage Random Forest Model

(2012) Mingjun Wang et al.   PLoS One

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

(2012) Jiangning Song et al.   PLoS One

An Integrative Computational Framework Based on a Two-Step Random Forest Algorithm Improves Prediction of Zinc-Binding Sites in Proteins

(2012) Cheng Zheng et al.   PLoS One

Position-Specific Analysis and Prediction for Protein Lysine Acetylation Based on Multiple Features

(2012) Sheng-Bao Suo et al.   PLoS One

SPINE X: Improving protein secondary structure prediction by multistep learning coupled with prediction of solvent accessible surface area and backbone torsion angles

(2011) Eshel Faraggi et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

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

(2011) S. Hunter et al.   NUCLEIC ACIDS RESEARCH

Reorganizing the protein space at the Universal Protein Resource (UniProt)

(2011)   NUCLEIC ACIDS RESEARCH

PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse

(2011) P. V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

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

Predicting Residue-Residue Contacts and Helix-Helix Interactions in Transmembrane Proteins Using an Integrative Feature-Based Random Forest Approach

(2011) Xiao-Feng Wang et al.   PLoS One

Protein acetylation in prokaryotes

(2011) Joshua D. Jones et al.   PROTEOMICS

Predicting post-translational lysine acetylation using support vector machines

(2010) F. Gnad et al.   BIOINFORMATICS

Prediction of protein–RNA binding sites by a random forest method with combined features

(2010) Zhi-Ping Liu et al.   BIOINFORMATICS

The Tale of Protein Lysine Acetylation in the Cytoplasm

(2010) Karin Sadoul et al.   JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY

N-Ace: Using solvent accessibility and physicochemical properties to identify protein N-acetylation sites

(2010) Tzong-Yi Lee et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Lysine acetylation sites prediction using an ensemble of support vector machine classifiers

(2010) Yan Xu et al.   JOURNAL OF THEORETICAL BIOLOGY

Decoding signalling networks by mass spectrometry-based proteomics

(2010) Chunaram Choudhary et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

PHOSIDA 2011: the posttranslational modification database

(2010) F. Gnad et al.   NUCLEIC ACIDS RESEARCH

CPLA 1.0: an integrated database of protein lysine acetylation

(2010) Zexian Liu et al.   NUCLEIC ACIDS RESEARCH

Identifying Human Kinase-Specific Protein Phosphorylation Sites by Integrating Heterogeneous Information from Various Sources

(2010) Tingting Li et al.   PLoS One

Regulation of Cellular Metabolism by Protein Lysine Acetylation

(2010) S. Zhao et al.   SCIENCE

Improved visualization of protein consensus sequences by iceLogo

(2009) Niklaas Colaert et al.   NATURE METHODS

Proteome-wide prediction of acetylation substrates

(2009) A. Basu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Improved Prediction of Lysine Acetylation by Support Vector Machines

(2009) Songling Li et al.   PROTEIN AND PEPTIDE LETTERS

Lysine Acetylation Targets Protein Complexes and Co-Regulates Major Cellular Functions

(2009) C. Choudhary et al.   SCIENCE

Predicting N-terminal acetylation based on feature selection method

(2008) Yu-Dong Cai et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Prediction of DNA-binding residues in proteins from amino acid sequences using a random forest model with a hybrid feature

(2008) Jiansheng Wu et al.   BIOINFORMATICS

The unfoldomics decade: an update on intrinsically disordered proteins

(2008) A Keith Dunker et al.   BMC GENOMICS

STRING 8--a global view on proteins and their functional interactions in 630 organisms

(2008) L. J. Jensen et al.   NUCLEIC ACIDS RESEARCH