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Jingchun Sun et al.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS (2007)
Phylogenetic profiles for the prediction of protein-protein interactions: How to select reference organisms?
Jingchun Sun et al.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS (2007)
An improved method for identifying functionally linked proteins using phylogenetic profiles
Shawn Cokus et al.
BMC BIOINFORMATICS (2007)
STRING 7 - recent developments in the integration and prediction of protein interactions
Christian von Mering et al.
NUCLEIC ACIDS RESEARCH (2007)
Locally defined protein phylogenetic profiles reveal previously missed protein interactions and functional relationships
Y Kim et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2006)
Inferring functional information from domain co-evolution
Y Kim et al.
BIOINFORMATICS (2006)
MIPS: analysis and annotation of proteins from whole genomes in 2005
H. W. Mewes et al.
NUCLEIC ACIDS RESEARCH (2006)
Ab initio genotype-phenotype association reveals intrinsic modularity in genetic networks
Noam Slonim et al.
MOLECULAR SYSTEMS BIOLOGY (2006)
Knowledge-based voting algorithm for automated protein functional annotation
GX Yu et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2005)
ErmineJ: Tool for functional analysis of gene expression data sets
HK Lee et al.
BMC BIOINFORMATICS (2005)
Phylogenetic detection of conserved gene clusters in microbial genomes
Y Zheng et al.
BMC BIOINFORMATICS (2005)
Assessing protein co-evolution in the context of the tree of life assists in the prediction of the interactome
F Pazos et al.
JOURNAL OF MOLECULAR BIOLOGY (2005)
The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships
T Sato et al.
BIOINFORMATICS (2005)
Refined phylogenetic profiles method for predicting protein-protein interactions
JC Sun et al.
BIOINFORMATICS (2005)
Functional genome annotation through phylogenomic mapping
BS Srinivasan et al.
NATURE BIOTECHNOLOGY (2005)
Protein function prediction using the Protein Link EXplorer (PLEX)
SV Date et al.
BIOINFORMATICS (2005)
Predicting gene function through systematic analysis and quality assessment of high-throughput data
P Kemmeren et al.
BIOINFORMATICS (2005)
In silico gene function prediction using ontology-based pattern identification
YY Zhou et al.
BIOINFORMATICS (2005)
Improving genome annotations using phylogenetic profile anomaly detection
TS Mikkelsen et al.
BIOINFORMATICS (2005)
STRING: known and predicted protein-protein associations, integrated and transferred across organisms
C von Mering et al.
NUCLEIC ACIDS RESEARCH (2005)
Prediction of functional modules based on comparative genome analysis and Gene Ontology application
HW Wu et al.
NUCLEIC ACIDS RESEARCH (2005)
Relative predicted protein levels of functionally associated proteins are conserved across organisms
G Lithwick et al.
NUCLEIC ACIDS RESEARCH (2005)
Confirmation of data mining based predictions of protein function
RD King et al.
BIOINFORMATICS (2004)
Whole-genome annotation by using evidence integration in functional-linkage networks
U Karaoz et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2004)
MUSCLE: multiple sequence alignment with high accuracy and high throughput
RC Edgar
NUCLEIC ACIDS RESEARCH (2004)
Analyzing protein function on a genomic scale: the importance of gold-standard positives and negatives for network prediction
R Jansen et al.
CURRENT OPINION IN MICROBIOLOGY (2004)
Prediction of protein function in the absence of significant sequence similarity
PD Dobson et al.
CURRENT MEDICINAL CHEMISTRY (2004)
Phydbac2: improved inference of gene function using interactive phylogenomic profiling and chromosomal location analysis
F Enault et al.
NUCLEIC ACIDS RESEARCH (2004)
Twelve C2H2 zinc-finger genes on human chromosome 19 can be each translated into the same type of protein after frameshifts
SW Meng et al.
BIOINFORMATICS (2004)
Prolinks: a database of protein functional linkages derived from coevolution
PM Bowers et al.
GENOME BIOLOGY (2004)
Identification of functional links between genes using phylogenetic profiles
J Wu et al.
BIOINFORMATICS (2003)
A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae)
OG Troyanskaya et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)
Classification schemes for protein structure and function
CA Ouzounis et al.
NATURE REVIEWS GENETICS (2003)
Annotation of bacterial genomes using improved phylogenomic profiles
F. Enault et al.
BIOINFORMATICS (2003)
Inference of protein function and protein linkages in Mycobacterium tuberculosis based on prokaryotic genome organization: a combined computational approach
M Strong et al.
GENOME BIOLOGY (2003)
Orthology, paralogy and proposed classification for paralog subtypes
ELL Sonnhammer et al.
TRENDS IN GENETICS (2002)
Phylogenetic analysis and gene functional predictions: Phylogenomics in action
JA Eisen et al.
THEORETICAL POPULATION BIOLOGY (2002)
The closest BLAST hit is often not the nearest neighbor
LB Koski et al.
JOURNAL OF MOLECULAR EVOLUTION (2001)
The utility of different representations of protein sequence for predicting functional class
RD King et al.
BIOINFORMATICS (2001)
The COG database: new developments in phylogenetic classification of proteins from complete genomes
RL Tatusov et al.
NUCLEIC ACIDS RESEARCH (2001)
Investigating 42 candidate orthologous protein groups by molecular evolutionary analysis on genome scale
T Xie et al.
GENE (2000)
Localizing proteins in the cell from their phylogenetic profiles
EM Marcotte et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2000)
Protein function in the post-genomic era
D Eisenberg et al.
NATURE (2000)
Who's your neighbor? New computational approaches for functional genomics
MY Galperin et al.
NATURE BIOTECHNOLOGY (2000)
Comparative genomics of the eukaryotes
GM Rubin et al.
SCIENCE (2000)
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
P Uetz et al.
NATURE (2000)
The Protein Data Bank
HM Berman et al.
NUCLEIC ACIDS RESEARCH (2000)