Published in BMC Bioinformatics on February 27, 2009
ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res (2009) 7.34
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Efficient prediction of human protein-protein interactions at a global scale. BMC Bioinformatics (2014) 0.77
Analysis of the robustness of network-based disease-gene prioritization methods reveals redundancy in the human interactome and functional diversity of disease-genes. PLoS One (2014) 0.77
Integration strategy is a key step in network-based analysis and dramatically affects network topological properties and inferring outcomes. Biomed Res Int (2014) 0.77
ProSim: A Method for Prioritizing Disease Genes Based on Protein Proximity and Disease Similarity. Biomed Res Int (2015) 0.77
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Prioritizing disease candidate proteins in cardiomyopathy-specific protein-protein interaction networks based on "guilt by association" analysis. PLoS One (2013) 0.76
Discovering gene re-ranking efficiency and conserved gene-gene relationships derived from gene co-expression network analysis on breast cancer data. Sci Rep (2016) 0.76
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Multiplex meta-analysis of RNA expression to identify genes with variants associated with immune dysfunction. J Am Med Inform Assoc (2012) 0.76
Network analysis reveals common host protein/s modulating pathogenesis of neurotropic viruses. Sci Rep (2016) 0.76
Network medicine analysis of chondrocyte proteins towards new treatments of osteoarthritis. Proc Biol Sci (2014) 0.76
A random set scoring model for prioritization of disease candidate genes using protein complexes and data-mining of GeneRIF, OMIM and PubMed records. BMC Bioinformatics (2014) 0.76
Maternal obesity drives functional alterations in uterine NK cells. JCI Insight (2016) 0.76
An algorithm for network-based gene prioritization that encodes knowledge both in nodes and in links. PLoS One (2013) 0.76
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A systematic analysis of human lipocalin family and its expression in esophageal carcinoma. Sci Rep (2015) 0.75
Nonrandom Distribution of miRNAs Genes and Single Nucleotide Variants in Keratoconus Loci. PLoS One (2015) 0.75
A large-scale benchmark of gene prioritization methods. Sci Rep (2017) 0.75
SGFSC: speeding the gene functional similarity calculation based on hash tables. BMC Bioinformatics (2016) 0.75
NERI: network-medicine based integrative approach for disease gene prioritization by relative importance. BMC Bioinformatics (2015) 0.75
An improved method for functional similarity analysis of genes based on Gene Ontology. BMC Syst Biol (2016) 0.75
Cross-disorder comparative analysis of comorbid conditions reveals novel autism candidate genes. BMC Genomics (2017) 0.75
Network Analysis of Cancer-focused Association Network Reveals Distinct Network Association Patterns. Cancer Inform (2014) 0.75
The kielin/chordin-like protein KCP attenuates nonalcoholic fatty liver disease in mice. Am J Physiol Gastrointest Liver Physiol (2016) 0.75
Systematic analysis of the molecular mechanism underlying atherosclerosis using a text mining approach. Hum Genomics (2016) 0.75
Prioritization of Susceptibility Genes for Ectopic Pregnancy by Gene Network Analysis. Int J Mol Sci (2016) 0.75
Relevant Networks involving the p53 Signalling Pathway in Renal Cell Carcinoma. Int J Biomed Sci (2011) 0.75
Linked vaccine adverse event data from VAERS for biomedical data analysis and longitudinal studies. BioData Min (2014) 0.75
Network analysis reveals stage-specific changes in zebrafish embryo development using time course whole transcriptome profiling and prior biological knowledge. BioData Min (2015) 0.75
Network propagation: a universal amplifier of genetic associations. Nat Rev Genet (2017) 0.75
Applying Systems Biology Methodology To Identify Genetic Factors Possibly Associated with Recovery after Traumatic Brain Injury. J Neurotrauma (2017) 0.75
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A human protein-protein interaction network: a resource for annotating the proteome. Cell (2005) 18.97
BIND: the Biomolecular Interaction Network Database. Nucleic Acids Res (2003) 18.75
A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science (2003) 12.07
The BioGRID Interaction Database: 2008 update. Nucleic Acids Res (2007) 11.83
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Human protein reference database as a discovery resource for proteomics. Nucleic Acids Res (2004) 9.99
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Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps. Bioinformatics (2005) 3.70
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Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases. BMC Bioinformatics (2007) 3.44
ErbB2 is essential in the prevention of dilated cardiomyopathy. Nat Med (2002) 3.36
Systematic discovery of new recognition peptides mediating protein interaction networks. PLoS Biol (2005) 3.28
A protein interaction network links GIT1, an enhancer of huntingtin aggregation, to Huntington's disease. Mol Cell (2004) 3.26
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Speeding disease gene discovery by sequence based candidate prioritization. BMC Bioinformatics (2005) 2.99
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POCUS: mining genomic sequence annotation to predict disease genes. Genome Biol (2003) 2.93
Interactome-transcriptome analysis reveals the high centrality of genes differentially expressed in lung cancer tissues. Bioinformatics (2005) 2.82
Cardiac malformations, adrenal agenesis, neural crest defects and exencephaly in mice lacking Cited2, a new Tfap2 co-activator. Nat Genet (2001) 2.60
Improved human disease candidate gene prioritization using mouse phenotype. BMC Bioinformatics (2007) 2.56
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Mining gene-disease relationships from biomedical literature: weighting protein-protein interactions and connectivity measures. Pac Symp Biocomput (2007) 1.23
Human protein-protein interaction networks and the value for drug discovery. Drug Discov Today (2007) 1.03
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ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res (2009) 7.34
Eotaxin-3 and a uniquely conserved gene-expression profile in eosinophilic esophagitis. J Clin Invest (2006) 5.48
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An integrated database of genes responsive to the Myc oncogenic transcription factor: identification of direct genomic targets. Genome Biol (2003) 4.49
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ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems. Nucleic Acids Res (2010) 1.75
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A thrombospondin-dependent pathway for a protective ER stress response. Cell (2012) 1.45
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Integrative genomic analyses of neurofibromatosis tumours identify SOX9 as a biomarker and survival gene. EMBO Mol Med (2009) 1.41
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Credentialing a preclinical mouse model of alveolar rhabdomyosarcoma. Cancer Res (2009) 1.37
Drug repositioning for orphan diseases. Brief Bioinform (2011) 1.37
RB loss abrogates cell cycle control and genome integrity to promote liver tumorigenesis. Gastroenterology (2007) 1.36
Novel resequencing chip customized to diagnose mutations in patients with inherited syndromes of intrahepatic cholestasis. Gastroenterology (2006) 1.35
Loss of Rab25 promotes the development of intestinal neoplasia in mice and is associated with human colorectal adenocarcinomas. J Clin Invest (2010) 1.35
Functional evolution of the p53 regulatory network through its target response elements. Proc Natl Acad Sci U S A (2008) 1.34
The transcription factor GATA-6 regulates pathological cardiac hypertrophy. Circ Res (2010) 1.32
Identification of human nephron progenitors capable of generation of kidney structures and functional repair of chronic renal disease. EMBO Mol Med (2013) 1.32
Genomics of the periinfarction cortex after focal cerebral ischemia. J Cereb Blood Flow Metab (2003) 1.32
Exploring off-targets and off-systems for adverse drug reactions via chemical-protein interactome--clozapine-induced agranulocytosis as a case study. PLoS Comput Biol (2011) 1.26
Microarray and comparative genomics-based identification of genes and gene regulatory regions of the mouse immune system. BMC Genomics (2004) 1.25
Serine 105 phosphorylation of transcription factor GATA4 is necessary for stress-induced cardiac hypertrophy in vivo. Proc Natl Acad Sci U S A (2011) 1.23
mTOR inhibitors synergize on regression, reversal of gene expression, and autophagy in hepatocellular carcinoma. Sci Transl Med (2012) 1.21
The SWI/SNF ATPase Brm is a gatekeeper of proliferative control in prostate cancer. Cancer Res (2008) 1.21
Shared gene expression profiles in developing heart valves and osteoblast progenitor cells. Physiol Genomics (2008) 1.21
Essential requirement of apolipoprotein J (clusterin) signaling for IkappaB expression and regulation of NF-kappaB activity. J Biol Chem (2003) 1.20
Dynamic interaction between T cell-mediated beta-cell damage and beta-cell repair in the run up to autoimmune diabetes of the NOD mouse. Physiol Genomics (2005) 1.19
Dissecting microregulation of a master regulatory network. BMC Genomics (2008) 1.18
CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes. Nucleic Acids Res (2005) 1.18
GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologs. Nucleic Acids Res (2006) 1.17
Calcineurin Abeta gene targeting predisposes the myocardium to acute ischemia-induced apoptosis and dysfunction. Circ Res (2003) 1.16
PhenoHM: human-mouse comparative phenome-genome server. Nucleic Acids Res (2010) 1.16
Gene expression signatures in polyarticular juvenile idiopathic arthritis demonstrate disease heterogeneity and offer a molecular classification of disease subsets. Arthritis Rheum (2009) 1.15
Novel genes and functional relationships in the adult mouse gastrointestinal tract identified by microarray analysis. Gastroenterology (2002) 1.15