Deep learning improves antimicrobial peptide recognition

Improving Recognition of Antimicrobial Peptides and Target Selectivity through Machine Learning and Genetic Programming

(2017) Daniel Veltri et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Predicting antimicrobial peptides with improved accuracy by incorporating the compositional, physico-chemical and structural features into Chou’s general PseAAC

(2017) Prabina Kumar Meher et al.   Scientific Reports

Molecular mechanisms of membrane targeting antibiotics

(2016) Richard M. Epand et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

Mapping membrane activity in undiscovered peptide sequence space using machine learning

(2016) Ernest Y. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Deep Learning Network Approach to ab initio Protein Secondary Structure Prediction

(2015) Matt Spencer et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Deep learning

(2015) Yann LeCun et al.   NATURE

Deep learning in neural networks: An overview

(2015) Jürgen Schmidhuber   NEURAL NETWORKS

APD3: the antimicrobial peptide database as a tool for research and education

(2015) Guangshun Wang et al.   NUCLEIC ACIDS RESEARCH

Bioprospecting the American Alligator (Alligator mississippiensis) Host Defense Peptidome

(2015) Barney M. Bishop et al.   PLoS One

Improving Protein Fold Recognition by Deep Learning Networks

(2015) Taeho Jo et al.   Scientific Reports

Effective Automated Feature Construction and Selection for Classification of Biological Sequences

(2014) Uday Kamath et al.   PLoS One

Enhanced Regulatory Sequence Prediction Using Gapped k-mer Features

(2014) Mahmoud Ghandi et al.   PLoS Computational Biology

iAMP-2L: A two-level multi-label classifier for identifying antimicrobial peptides and their functional types

(2013) Xuan Xiao et al.   ANALYTICAL BIOCHEMISTRY

Prediction of antimicrobial peptides based on the adaptive neuro-fuzzy inference system application

(2012) Fabiano C. Fernandes et al.   BIOPOLYMERS

Staphylococcus aureus CC398: Host Adaptation and Emergence of Methicillin Resistance in Livestock

(2012) L. B. Price et al.   mBio

pROC: an open-source package for R and S+ to analyze and compare ROC curves

(2011) Xavier Robin et al.   BMC BIOINFORMATICS

Antimicrobial Peptides: Successes, Challenges and Unanswered Questions

(2011) William C. Wimley et al.   JOURNAL OF MEMBRANE BIOLOGY

Connecting Peptide Physicochemical and Antimicrobial Properties by a Rational Prediction Model

(2011) Marc Torrent et al.   PLoS One

UniProt Knowledgebase: a hub of integrated protein data

(2011) M. Magrane et al.   Database-The Journal of Biological Databases and Curation

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

(2010) Ying Huang et al.   BIOINFORMATICS

AntiBP2: improved version of antibacterial peptide prediction

(2010) Sneh Lata et al.   BMC BIOINFORMATICS

Identification of Novel Antibacterial Peptides by Chemoinformatics and Machine Learning†

(2009) Christopher D. Fjell et al.   JOURNAL OF MEDICINAL CHEMISTRY