FFPred 3: feature-based function prediction for all Gene Ontology domains

Computational protein function predictions

(2016) Daisuke Kihara   METHODS

Integrated protein function prediction by mining function associations, sequences, and protein–protein and gene–gene interaction networks

(2016) Renzhi Cao et al.   METHODS

ProFET: Feature engineering captures high-level protein functions

(2015) Dan Ofer et al.   BIOINFORMATICS

Machine learning applications in genetics and genomics

(2015) Maxwell W. Libbrecht et al.   NATURE REVIEWS GENETICS

Intrinsically disordered proteins in cellular signalling and regulation

(2015) Peter E. Wright et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Semi-supervised Learning Predicts Approximately One Third of the Alternative Splicing Isoforms as Functional Proteins

(2015) Yanqi Hao et al.   Cell Reports

An introduction to protein moonlighting: Table 1

(2014) Constance J. Jeffery   BIOCHEMICAL SOCIETY TRANSACTIONS

UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches

(2014) B. E. Suzek et al.   BIOINFORMATICS

The GOA database: Gene Ontology annotation updates for 2015

(2014) Rachael P. Huntley et al.   NUCLEIC ACIDS RESEARCH

The InterPro protein families database: the classification resource after 15 years

(2014) Alex Mitchell et al.   NUCLEIC ACIDS RESEARCH

UniProt: a hub for protein information

(2014)   NUCLEIC ACIDS RESEARCH

Understanding how and why the Gene Ontology and its annotations evolve: the GO within UniProt

(2014) Rachael P Huntley et al.   GigaScience

Information-theoretic evaluation of predicted ontological annotations

(2013) Wyatt T. Clark et al.   BIOINFORMATICS

Protein function prediction by massive integration of evolutionary analyses and multiple data sources

(2013) Domenico Cozzetto et al.   BMC BIOINFORMATICS

The contribution of intrinsic disorder prediction to the elucidation of protein function

(2013) Domenico Cozzetto et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Alternative splicing of intrinsically disordered regions and rewiring of protein interactions

(2013) Marija Buljan et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

A large-scale evaluation of computational protein function prediction

(2013) Predrag Radivojac et al.   NATURE METHODS

FFPred 2.0: Improved Homology-Independent Prediction of Gene Ontology Terms for Eukaryotic Protein Sequences

(2013) Federico Minneci et al.   PLoS One

A guide to best practices for Gene Ontology (GO) manual annotation

(2013) R. Balakrishnan et al.   Database-The Journal of Biological Databases and Curation

Systematically Differentiating Functions for Alternatively Spliced Isoforms through Integrating RNA-seq Data

(2013) Ridvan Eksi et al.   PLoS Computational Biology

Function of alternative splicing

(2012) Olga Kelemen et al.   GENE

Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium

(2011) P. Gaudet et al.   BRIEFINGS IN BIOINFORMATICS

Analysis of protein function and its prediction from amino acid sequence

(2011) Wyatt T. Clark et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

HIERARCHICAL CLASSIFICATION OF GENE ONTOLOGY TERMS USING THE GOstruct METHOD

(2010) ARTEM SOKOLOV et al.   Journal of Bioinformatics and Computational Biology

Stochastic noise in splicing machinery

(2009) Eugene Melamud et al.   NUCLEIC ACIDS RESEARCH