MusiteDeep: a deep-learning based webserver for protein post-translational modification site prediction and visualization

Boosting phosphorylation site prediction with sequence feature‐based machine learning

(2019) Shyantani Maiti et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

G2S: a web-service for annotating genomic variants on 3D protein structures

(2018) Juexin Wang et al.   BIOINFORMATICS

PTM-ssMP: A Web Server for Predicting Different Types of Post-translational Modification Sites Using Novel Site-specific Modification Profile

(2018) Yu Liu et al.   International Journal of Biological Sciences

PhosContext2vec: a distributed representation of residue-level sequence contexts and its application to general and kinase-specific phosphorylation site prediction

(2018) Ying Xu et al.   Scientific Reports

A generic Deep Convolutional Neural Network framework for prediction of Receptor-ligand Interactions. NetPhosPan; Application to Kinase Phosphorylation prediction

(2018) Emilio Fenoy et al.   BIOINFORMATICS

AWESOME: a database of SNPs that affect protein post-translational modifications

(2018) Yang Yang et al.   NUCLEIC ACIDS RESEARCH

Roles of Post-translational Modifications in Spinocerebellar Ataxias

(2018) Linlin Wan et al.   Frontiers in Cellular Neuroscience

DeepPhos: prediction of protein phosphorylation sites with deep learning

(2018) Fenglin Luo et al.   BIOINFORMATICS

Capsule network for protein post-translational modification site prediction

(2018) Duolin Wang et al.   BIOINFORMATICS

qPhos: a database of protein phosphorylation dynamics in humans

(2018) Kai Yu et al.   NUCLEIC ACIDS RESEARCH

dbPTM in 2019: exploring disease association and cross-talk of post-translational modifications

(2018) Kai-Yao Huang et al.   NUCLEIC ACIDS RESEARCH

RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy

(2018) Stephen K Burley et al.   NUCLEIC ACIDS RESEARCH

Fast prediction of protein methylation sites using a sequence-based feature selection technique

(2017) Leyi Wei et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Protein Posttranslational Modifications: Roles in Aging and Age-Related Disease

(2017) Ana L. Santos et al.   Oxidative Medicine and Cellular Longevity

RF-Hydroxysite: a random forest based predictor for hydroxylation sites

(2016) Hamid D. Ismail et al.   Molecular BioSystems

GPS-PAIL: prediction of lysine acetyltransferase-specific modification sites from protein sequences

(2016) Wankun Deng et al.   Scientific Reports

Deep learning

(2015) Yann LeCun et al.   NATURE

NGL Viewer: a web application for molecular visualization

(2015) Alexander S. Rose et al.   NUCLEIC ACIDS RESEARCH

GPS-SUMO: a tool for the prediction of sumoylation sites and SUMO-interaction motifs

(2014) Qi Zhao et al.   NUCLEIC ACIDS RESEARCH

The structural and functional signatures of proteins that undergo multiple events of post-translational modification

(2014) Vikas Pejaver et al.   PROTEIN SCIENCE

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

(2013) Xiang Chen et al.   BIOINFORMATICS

Protein post-translational modifications and regulation of pluripotency in human stem cells

(2013) Yu-Chieh Wang et al.   CELL RESEARCH

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

(2013) Jagat Singh Chauhan et al.   PLoS One

PTMcode: a database of known and predicted functional associations between post-translational modifications in proteins

(2012) Pablo Minguez et al.   NUCLEIC ACIDS RESEARCH

GPS-ARM: Computational Analysis of the APC/C Recognition Motif by Predicting D-Boxes and KEN-Boxes

(2012) Zexian Liu et al.   PLoS One

Post-translational modification: nature's escape from genetic imprisonment and the basis for dynamic information encoding

(2012) Sudhakaran Prabakaran et al.   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Musite, a Tool for Global Prediction of General and Kinase-specific Phosphorylation Sites

(2010) Jianjiong Gao et al.   MOLECULAR & CELLULAR PROTEOMICS

CSS-Palm 2.0: an updated software for palmitoylation sites prediction

(2008) J. Ren et al.   PROTEIN ENGINEERING DESIGN & SELECTION