DeepPPSite: A deep learning-based model for analysis and prediction of phosphorylation sites using efficient sequence information

A deep learning method to more accurately recall known lysine acetylation sites

(2019) Meiqi Wu et al.   BMC BIOINFORMATICS

ACP-DL: A Deep Learning Long Short-Term Memory Model to Predict Anticancer Peptides Using High Efficiency Feature Representation

(2019) Hai-Cheng Yi et al.   Molecular Therapy-Nucleic Acids

Pred-BVP-Unb: Fast prediction of bacteriophage Virion proteins using un-biased multi-perspective properties with recursive feature elimination

(2019) Muhammad Arif et al.   GENOMICS

Sequence-based prediction of protein-protein interaction sites by simplified long short-term memory network

(2019) Buzhong Zhang et al.   NEUROCOMPUTING

SDM6A: A Web-Based Integrative Machine-Learning Framework for Predicting 6mA Sites in the Rice Genome

(2019) Shaherin Basith et al.   Molecular Therapy-Nucleic Acids

Quokka: a comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome

(2018) Fuyi Li et al.   BIOINFORMATICS

Computational Prediction and Analysis for Tyrosine Post-Translational Modifications via Elastic Net

(2018) Man Cao et al.   Journal of Chemical Information and Modeling

iMem-2LSAAC: A two-level model for discrimination of membrane proteins and their types by extending the notion of SAAC into chou's pseudo amino acid composition

(2018) Muhammad Arif et al.   JOURNAL OF THEORETICAL BIOLOGY

EL_LSTM: Prediction of DNA-binding residue from Protein sequence by Combining Long Short-Term Memory and Ensemble Learning

(2018) Jiyun Zhou et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Recurrent Neural Network for Predicting Transcription Factor Binding Sites

(2018) Zhen Shen et al.   Scientific Reports

DeepPhos: prediction of protein phosphorylation sites with deep learning

(2018) Fenglin Luo et al.   BIOINFORMATICS

PredGly: predicting lysine glycation sites for Homo sapiens based on XGboost feature optimization

(2018) Jialin Yu et al.   BIOINFORMATICS

An Integrated Feature Selection Algorithm for Cancer Classification using Gene Expression Data

(2018) Saeed Ahmed et al.   COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING

Predicting protein–protein interactions by fusing various Chou's pseudo components and using wavelet denoising approach

(2018) Baoguang Tian et al.   JOURNAL OF THEORETICAL BIOLOGY

PhosPred-RF: A Novel Sequence-Based Predictor for Phosphorylation Sites Using Sequential Information Only

(2017) Leyi Wei et al.   IEEE TRANSACTIONS ON NANOBIOSCIENCE

Post-translational Modifications and Protein Quality Control in Motor Neuron and Polyglutamine Diseases

(2017) Fabio Sambataro et al.   Frontiers in Molecular Neuroscience

Protein post-translational modifications: In silico prediction tools and molecular modeling

(2017) Martina Audagnotto et al.   Computational and Structural Biotechnology Journal

iSS-PC: Identifying Splicing Sites via Physical-Chemical Properties Using Deep Sparse Auto-Encoder

(2017) Zhao-Chun Xu et al.   Scientific Reports

TargetM6A: Identifying N6-Methyladenosine Sites From RNA Sequences via Position-Specific Nucleotide Propensities and a Support Vector Machine

(2016) Guang-Qing Li et al.   IEEE TRANSACTIONS ON NANOBIOSCIENCE

Protein Phosphorylation: A Major Switch Mechanism for Metabolic Regulation

(2015) Sean J. Humphrey et al.   TRENDS IN ENDOCRINOLOGY AND METABOLISM

iSuc-PseAAC: predicting lysine succinylation in proteins by incorporating peptide position-specific propensity

(2015) Yan Xu et al.   Scientific Reports

PhosphoSVM: prediction of phosphorylation sites by integrating various protein sequence attributes with a support vector machine

(2014) Yongchao Dou et al.   AMINO ACIDS

Mining Conditional Phosphorylation Motifs

(2014) Xiaoqing Liu et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

A Multi-label Classifier for Prediction Membrane Protein Functional Types in Animal

(2014) Hong-Liang Zou   JOURNAL OF MEMBRANE BIOLOGY

Representation Learning: A Review and New Perspectives

(2013) Y. Bengio et al.   IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE

Covalent Small Ubiquitin-like Modifier (SUMO) Modification of Maf1 Protein Controls RNA Polymerase III-dependent Transcription Repression

(2013) Aarti D. Rohira et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Prediction of posttranslational modification sites from amino acid sequences with kernel methods

(2013) Yan Xu et al.   JOURNAL OF THEORETICAL BIOLOGY

A method to distinguish between lysine acetylation and lysine methylation from protein sequences

(2012) Shao-Ping Shi et al.   JOURNAL OF THEORETICAL BIOLOGY

Computational prediction of eukaryotic phosphorylation sites

(2011) B. Trost et al.   BIOINFORMATICS

Motif-All: discovering all phosphorylation motifs

(2011) Zengyou He et al.   BMC BIOINFORMATICS

Phosphorylation in Protein-Protein Binding: Effect on Stability and Function

(2011) Hafumi Nishi et al.   STRUCTURE

Proteome-wide post-translational modification statistics: frequency analysis and curation of the swiss-prot database

(2011) George A. Khoury et al.   Scientific Reports

AMS 3.0: Prediction of Post-Translational Modifications

(2010) Subhadip Basu et al.   BMC BIOINFORMATICS

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

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

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

(2010) Tingting Li et al.   PLoS One

An ensemble of reduced alphabets with protein encoding based on grouped weight for predicting DNA-binding proteins

(2008) Loris Nanni et al.   AMINO ACIDS

Computational identification of ubiquitylation sites from protein sequences

(2008) Chun-Wei Tung et al.   BMC BIOINFORMATICS