ATSE: a peptide toxicity predictor by exploiting structural and evolutionary information based on graph neural network and attention mechanism

Network-based prediction of drug–target interactions using an arbitrary-order proximity embedded deep forest

(2020) Xiangxiang Zeng et al.   BIOINFORMATICS

Improved protein structure prediction using potentials from deep learning

(2020) Andrew W. Senior et al.   NATURE

Application of deep learning methods in biological networks

(2020) Shuting Jin et al.   BRIEFINGS IN BIOINFORMATICS

Attention in Psychology, Neuroscience, and Machine Learning

(2020) Grace W. Lindsay   Frontiers in Computational Neuroscience

iBitter-SCM: Identification and characterization of bitter peptides using a scoring card method with propensity scores of dipeptides

(2020) Phasit Charoenkwan et al.   GENOMICS

iAMY-SCM: Improved prediction and analysis of amyloid proteins using a scoring card method with propensity scores of dipeptides

(2020) Phasit Charoenkwan et al.   GENOMICS

iUmami-SCM: A Novel Sequence-Based Predictor for Prediction and Analysis of Umami Peptides Using a Scoring Card Method with Propensity Scores of Dipeptides

(2020) Phasit Charoenkwan et al.   Journal of Chemical Information and Modeling

iDPPIV-SCM: A Sequence-Based Predictor for Identifying and Analyzing Dipeptidyl Peptidase IV (DPP-IV) Inhibitory Peptides Using a Scoring Card Method

(2020) Phasit Charoenkwan et al.   JOURNAL OF PROTEOME RESEARCH

Detecting Interactive Gene Groups for Single-Cell RNA-Seq Data Based on Co-Expression Network Analysis and Subgraph Learning

(2020) Xiucai Ye et al.   Cells

Protein Fold Recognition based on Multi-view Modeling

(2019) Ke Yan et al.   BIOINFORMATICS

deepDR: A network-based deep learning approach to in silico drug repositioning

(2019) Xiangxiang Zeng et al.   BIOINFORMATICS

MotifCNN-fold: protein fold recognition based on fold-specific features extracted by motif-based convolutional neural networks

(2019) Chen-Chen Li et al.   BRIEFINGS IN BIOINFORMATICS

DeepSVM-fold: protein fold recognition by combining support vector machines and pairwise sequence similarity scores generated by deep learning networks

(2019) Bin Liu et al.   BRIEFINGS IN BIOINFORMATICS

Protein Secondary Structure Prediction: A Review of Progress and Directions

(2019) Tomasz Smolarczyk et al.   Current Bioinformatics

ConvsPPIS: Identifying Protein-protein Interaction Sites by an Ensemble Convolutional Neural Network with Feature Graph

(2019) Huaixu Zhu et al.   Current Bioinformatics

Recent developments in deep learning applied to protein structure prediction

(2019) Shaun M. Kandathil et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Compound-protein Interaction Prediction with End-to-end Learning of Neural Networks for Graphs and Sequences

(2018) Masashi Tsubaki et al.   BIOINFORMATICS

Improving Self interacting proteins prediction accuracy using protein evolutionary information and Weighed-Extreme Learning Machine

(2018) Ji-Yong An et al.   Current Bioinformatics

HBPred: a tool to identify growth hormone-binding proteins

(2018) Hua Tang et al.   International Journal of Biological Sciences

A Review on the Recent Developments of Sequence-based Protein Feature Extraction Methods

(2018) Jun Zhang et al.   Current Bioinformatics

Predicting protein structural classes for low-similarity sequences by evaluating different features

(2018) Xiao-Juan Zhu et al.   KNOWLEDGE-BASED SYSTEMS

Sequence-, structure-, and dynamics-based comparisons of structurally homologous CheY-like proteins

(2017) Yi He et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identifying N6-methyladenosine sites using multi-interval nucleotide pair position specificity and support vector machine

(2017) Pengwei Xing et al.   Scientific Reports

Peptide therapeutics: current status and future directions

(2015) Keld Fosgerau et al.   DRUG DISCOVERY TODAY

Predicting immunogenic tumour mutations by combining mass spectrometry and exome sequencing

(2014) Mahesh Yadav et al.   NATURE

Effects on GLP-1, PYY, and leptin by direct stimulation of terminal ileum and cecum in humans: implications for ileal transposition

(2014) Henry Buchwald et al.   Surgery for Obesity and Related Diseases

Antimicrobial peptides and proteins in mycobacterial therapy: Current status and future prospects

(2014) Avinash Padhi et al.   TUBERCULOSIS

Neuroactive Peptides as Putative Mediators of Antiepileptic Ketogenic Diets

(2014) Carmela Giordano et al.   Frontiers in Neurology

Identification of B-cell epitopes in an antigen for inducing specific class of antibodies

(2013) Sudheer Gupta et al.   Biology Direct

In Silico Approach for Predicting Toxicity of Peptides and Proteins

(2013) Sudheer Gupta et al.   PLoS One

The Future of Peptide-based Drugs

(2012) David J. Craik et al.   Chemical Biology & Drug Design

Extraordinary metabolic stability of peptides containing α-aminoxy acids

(2011) Fei Chen et al.   AMINO ACIDS

ConoServer: updated content, knowledge, and discovery tools in the conopeptide database

(2011) Q. Kaas et al.   NUCLEIC ACIDS RESEARCH

Chemical Modifications Designed to Improve Peptide Stability: Incorporation of Non-Natural Amino Acids, Pseudo-Peptide Bonds, and Cyclization

(2010) Luca Gentilucci et al.   CURRENT PHARMACEUTICAL DESIGN

ArachnoServer: a database of protein toxins from spiders

(2009) David LA Wood et al.   BMC GENOMICS

Therapeutic antibodies: successes, limitations and hopes for the future

(2009) Patrick Chames et al.   BRITISH JOURNAL OF PHARMACOLOGY

Synthetic therapeutic peptides: science and market

(2009) Patrick Vlieghe et al.   DRUG DISCOVERY TODAY

ClanTox: a classifier of short animal toxins

(2009) G. Naamati et al.   NUCLEIC ACIDS RESEARCH