ProFET: Feature engineering captures high-level protein functions

The cleverSuite approach for protein characterization: predictions of structural properties, solubility, chaperone requirements and RNA-binding abilities

(2014) Petr Klus et al.   BIOINFORMATICS

SPiCE: a web-based tool for sequence-based protein classification and exploration

(2014) Bastiaan A van den Berg et al.   BMC BIOINFORMATICS

NeuroPID: a classifier of neuropeptide precursors

(2014) Solange Karsenty et al.   NUCLEIC ACIDS RESEARCH

PredictProtein—an open resource for online prediction of protein structural and functional features

(2014) Guy Yachdav et al.   NUCLEIC ACIDS RESEARCH

An Empirical Study of Different Approaches for Protein Classification

(2014) Loris Nanni et al.   TheScientificWorldJOURNAL

NeuroPID: a predictor for identifying neuropeptide precursors from metazoan proteomes

(2013) Dan Ofer et al.   BIOINFORMATICS

propy: a tool to generate various modes of Chou’s PseAAC

(2013) Dong-Sheng Cao et al.   BIOINFORMATICS

A large-scale evaluation of computational protein function prediction

(2013) Predrag Radivojac et al.   NATURE METHODS

SCOPe: Structural Classification of Proteins—extended, integrating SCOP and ASTRAL data and classification of new structures

(2013) Naomi K. Fox et al.   NUCLEIC ACIDS RESEARCH

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Hierarchical Classification of Protein Folds Using a Novel Ensemble Classifier

(2013) Chen Lin et al.   PLoS One

DNA-Prot: Identification of DNA Binding Proteins from Protein Sequence Information using Random Forest

(2012) K. Krishna. Kumar et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains

(2012) Tony E. Lewis et al.   NUCLEIC ACIDS RESEARCH

Enhanced Cancer Recognition System Based on Random Forests Feature Elimination Algorithm

(2011) Akin Ozcift   JOURNAL OF MEDICAL SYSTEMS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

ELM--the database of eukaryotic linear motifs

(2011) H. Dinkel et al.   NUCLEIC ACIDS RESEARCH

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

BindN+ for accurate prediction of DNA and RNA-binding residues from protein sequence features

(2010) Liangjiang Wang et al.   BMC Systems Biology

Prediction of thermophilic proteins using feature selection technique

(2010) Hao Lin et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Reduced amino acid alphabets exhibit an improved sensitivity and selectivity in fold assignment

(2009) Eric L. Peterson et al.   BIOINFORMATICS

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

Automated Alphabet Reduction for Protein Datasets

(2009) Jaume Bacardit et al.   BMC BIOINFORMATICS

Transmembrane protein topology prediction using support vector machines

(2009) Timothy Nugent et al.   BMC BIOINFORMATICS

Interpretable Numerical Descriptors of Amino Acid Space

(2009) Alexander G. Georgiev   JOURNAL OF COMPUTATIONAL BIOLOGY

ClanTox: a classifier of short animal toxins

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

Protein function prediction – the power of multiplicity

(2009) Robert Rentzsch et al.   TRENDS IN BIOTECHNOLOGY

TOP-IDP-Scale: A New Amino Acid Scale Measuring Propensity for Intrinsic Disorder

(2008) Andrew Campen et al.   PROTEIN AND PEPTIDE LETTERS