SIMAP—the database of all-against-all protein sequence similarities and annotations with new interfaces and increased coverage

Pclust: protein network visualization highlighting experimental data

(2013) Wenlin Li et al.   BIOINFORMATICS

Pythoscape: a framework for generation of large protein similarity networks

(2012) Alan E. Barber et al.   BIOINFORMATICS

KEGG OC: a large-scale automatic construction of taxonomy-based ortholog clusters

(2012) Akihiro Nakaya et al.   NUCLEIC ACIDS RESEARCH

Database resources of the National Center for Biotechnology Information

(2012)   NUCLEIC ACIDS RESEARCH

Ensembl 2013

(2012) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

(2012) Andrea Franceschini et al.   NUCLEIC ACIDS RESEARCH

ProtoNet 6.0: organizing 10 million protein sequences in a compact hierarchical family tree

(2011) N. Rappoport et al.   NUCLEIC ACIDS RESEARCH

Ensembl Genomes: an integrative resource for genome-scale data from non-vertebrate species

(2011) Paul J. Kersey et al.   NUCLEIC ACIDS RESEARCH

InterPro in 2011: new developments in the family and domain prediction database

(2011) S. Hunter et al.   NUCLEIC ACIDS RESEARCH

eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges

(2011) S. Powell et al.   NUCLEIC ACIDS RESEARCH

NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy

(2011) K. D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

OMA 2011: orthology inference among 1000 complete genomes

(2010) A. M. Altenhoff et al.   NUCLEIC ACIDS RESEARCH

GeneCards Version 3: the human gene integrator

(2010) M. Safran et al.   Database-The Journal of Biological Databases and Curation

SIMAP—a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters

(2009) Thomas Rattei et al.   NUCLEIC ACIDS RESEARCH

Using Sequence Similarity Networks for Visualization of Relationships Across Diverse Protein Superfamilies

(2009) Holly J. Atkinson et al.   PLoS One

Nature of the protein universe

(2009) M. Levitt   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

PEDANT covers all complete RefSeq genomes

(2008) M. C. Walter et al.   NUCLEIC ACIDS RESEARCH