Proteins with Highly Evolvable Domain Architectures Are Nonessential but Highly Retained

The binary protein-protein interaction landscape of Escherichia coli

(2014) Seesandra V Rajagopala et al.   NATURE BIOTECHNOLOGY

The Robustness and Evolvability of Transcription Factor Binding Sites

(2014) J. L. Payne et al.   SCIENCE

The architectural design of networks of protein domain architectures

(2013) C.-H. Hsu et al.   Biology Letters

eggNOG v4.0: nested orthology inference across 3686 organisms

(2013) Sean Powell et al.   NUCLEIC ACIDS RESEARCH

Pfam: the protein families database

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

MisPred: a resource for identification of erroneous protein sequences in public databases

(2013) Alinda Nagy et al.   Database-The Journal of Biological Databases and Curation

Evolutionary dynamics of protein domain architecture in plants

(2012) Xue-Cheng Zhang et al.   BMC EVOLUTIONARY BIOLOGY

Evolution of Animal and Plant Dicers: Early Parallel Duplications and Recurrent Adaptation of Antiviral RNA Binding in Plants

(2012) Krishanu Mukherjee et al.   MOLECULAR BIOLOGY AND EVOLUTION

The BioGRID interaction database: 2013 update

(2012) Andrew Chatr-aryamontri et al.   NUCLEIC ACIDS RESEARCH

Evolutionary Dynamics of Gene and Isoform Regulation in Mammalian Tissues

(2012) J. Merkin et al.   SCIENCE

Characterizing genetic interactions in human disease association studies using statistical epistasis networks

(2011) Ting Hu et al.   BMC BIOINFORMATICS

Inferring pleiotropy by network analysis: linked diseases in the human PPI network

(2011) Thanh-Phuong Nguyen et al.   BMC Systems Biology

Genetic Architecture of Growth Traits Revealed by Global Epistatic Interactions

(2011) Lin Xu et al.   Genome Biology and Evolution

Nature and Intensity of Selection Pressure on CRISPR-Associated Genes

(2011) N. Takeuchi et al.   JOURNAL OF BACTERIOLOGY

DNA Methylation Rebalances Gene Dosage after Mammalian Gene Duplications

(2011) A. Y.-F. Chang et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

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

The NCBI Taxonomy database

(2011) S. Federhen   NUCLEIC ACIDS RESEARCH

Topological Structure of the Space of Phenotypes: The Case of RNA Neutral Networks

(2011) Jacobo Aguirre et al.   PLoS One

Evolution of molecular error rates and the consequences for evolvability

(2011) E. Rajon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reductive evolution of proteomes and protein structures

(2011) M. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

UniProt Knowledgebase: a hub of integrated protein data

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

Impact of Extracellularity on the Evolutionary Rate of Mammalian Proteins

(2010) Ben-Yang Liao et al.   Genome Biology and Evolution

Correlating Traits of Gene Retention, Sequence Divergence, Duplicability and Essentiality in Vertebrates, Arthropods, and Fungi

(2010) Robert M. Waterhouse et al.   Genome Biology and Evolution

The Genetic Landscape of a Cell

(2010) M. Costanzo et al.   SCIENCE

Maintenance of duplicate genes and their functional redundancy by reduced expression

(2010) Wenfeng Qian et al.   TRENDS IN GENETICS

The evolution of protein domain families

(2009) Marija Buljan et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Shadows of complexity: what biological networks reveal about epistasis and pleiotropy

(2009) Anna L. Tyler et al.   BIOESSAYS

Co-expression networks: graph properties and topological comparisons

(2009) Ramon Xulvi-Brunet et al.   BIOINFORMATICS

Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity

(2009) Rotem Sorek et al.   NATURE REVIEWS GENETICS

BioMart Central Portal—unified access to biological data

(2009) Syed Haider et al.   NUCLEIC ACIDS RESEARCH

Evolution and evolvability: celebrating Darwin 200

(2008) J. F.Y Brookfield   Biology Letters

Neutral network sizes of biological RNA molecules can be computed and are not atypically small

(2008) Thomas Jörg et al.   BMC BIOINFORMATICS

Evolution of protein domain promiscuity in eukaryotes

(2008) M. K. Basu et al.   GENOME RESEARCH

EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates

(2008) A. J. Vilella et al.   GENOME RESEARCH

Null mutations in human and mouse orthologs frequently result in different phenotypes

(2008) B.-Y. Liao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Alternative splicing: current perspectives

(2007) Eddo Kim et al.   BIOESSAYS

Is evolvability evolvable?

(2007) Massimo Pigliucci   NATURE REVIEWS GENETICS