SVD-phy: improved prediction of protein functional associations through singular value decomposition of phylogenetic profiles

ProtPhylo: identification of protein–phenotype and protein–protein functional associations via phylogenetic profiling

(2015) Yiming Cheng et al.   NUCLEIC ACIDS RESEARCH

Phylogenetic Profiling: How Much Input Data Is Enough?

(2015) Nives Škunca et al.   PLoS One

Expansion of Biological Pathways Based on Evolutionary Inference

(2014) Yang Li et al.   CELL

STRING v10: protein–protein interaction networks, integrated over the tree of life

(2014) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Human disease locus discovery and mapping to molecular pathways through phylogenetic profiling

(2013) Y. Tabach et al.   Molecular Systems Biology

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

(2013) Roland Arnold et al.   NUCLEIC ACIDS RESEARCH

The Reactome pathway knowledgebase

(2013) David Croft et al.   NUCLEIC ACIDS RESEARCH

Data, information, knowledge and principle: back to metabolism in KEGG

(2013) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Detection of Genomic Idiosyncrasies Using Fuzzy Phylogenetic Profiles

(2013) Fotis E. Psomopoulos et al.   PLoS One

Genomic context analysis reveals dense interaction network between vertebrate ultraconserved non-coding elements

(2012) S. Dimitrieva et al.   BIOINFORMATICS

Identification of small RNA pathway genes using patterns of phylogenetic conservation and divergence

(2012) Yuval Tabach et al.   NATURE

EcoCyc: fusing model organism databases with systems biology

(2012) Ingrid M. Keseler et al.   NUCLEIC ACIDS RESEARCH

NAPP: the Nucleic Acid Phylogenetic Profile Database

(2011) Alban Ott et al.   NUCLEIC ACIDS RESEARCH