Published in BMC Bioinformatics on April 21, 2009
Adding protein context to the human protein-protein interaction network to reveal meaningful interactions. PLoS Comput Biol (2013) 1.10
Identification of novel mitosis regulators through data mining with human centromere/kinetochore proteins as group queries. BMC Cell Biol (2012) 1.04
Construction and analysis of the protein-protein interaction networks for schizophrenia, bipolar disorder, and major depression. BMC Bioinformatics (2011) 0.98
Neuregulin 1-erbB4 pathway in schizophrenia: From genes to an interactome. Brain Res Bull (2010) 0.97
Gene expression-based chemical genomics identifies potential therapeutic drugs in hepatocellular carcinoma. PLoS One (2011) 0.92
Protein kinase target discovery from genome-wide messenger RNA expression profiling. Mt Sinai J Med (2010) 0.87
Analysis of protein-protein interactions in cross-talk pathways reveals CRKL protein as a novel prognostic marker in hepatocellular carcinoma. Mol Cell Proteomics (2013) 0.84
Construction and analysis of the protein-protein interaction networks based on gene expression profiles of Parkinson's disease. PLoS One (2014) 0.82
Analysis of schizophrenia and hepatocellular carcinoma genetic network with corresponding modularity and pathways: novel insights to the immune system. BMC Genomics (2013) 0.81
Transcriptome alterations of mitochondrial and coagulation function in schizophrenia by cortical sequencing analysis. BMC Genomics (2014) 0.79
Construction and analysis of protein-protein interaction networks based on proteomics data of prostate cancer. Int J Mol Med (2016) 0.75
Epigenetic profiling of human brain differential DNA methylation networks in schizophrenia. BMC Med Genomics (2016) 0.75
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Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res (2003) 103.76
Lethality and centrality in protein networks. Nature (2001) 29.64
Large-scale analysis of the human and mouse transcriptomes. Proc Natl Acad Sci U S A (2002) 25.47
BioGRID: a general repository for interaction datasets. Nucleic Acids Res (2006) 22.41
Human Protein Reference Database--2009 update. Nucleic Acids Res (2008) 21.25
A protein interaction map of Drosophila melanogaster. Science (2003) 20.06
The human disease network. Proc Natl Acad Sci U S A (2007) 19.58
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
MINT: a Molecular INTeraction database. FEBS Lett (2002) 17.21
A map of the interactome network of the metazoan C. elegans. Science (2004) 15.60
Human protein reference database--2006 update. Nucleic Acids Res (2006) 12.16
DIP: the database of interacting proteins. Nucleic Acids Res (2000) 10.06
MIPS: analysis and annotation of proteins from whole genomes. Nucleic Acids Res (2004) 8.58
Computing topological parameters of biological networks. Bioinformatics (2007) 5.36
CYGD: the Comprehensive Yeast Genome Database. Nucleic Acids Res (2005) 5.25
Identification of potential interaction networks using sequence-based searches for conserved protein-protein interactions or "interologs". Genome Res (2001) 5.10
Network modeling links breast cancer susceptibility and centrosome dysfunction. Nat Genet (2007) 4.69
Probabilistic model of the human protein-protein interaction network. Nat Biotechnol (2005) 3.99
Comparative genomics of centrality and essentiality in three eukaryotic protein-interaction networks. Mol Biol Evol (2004) 3.73
Genomic analysis of essentiality within protein networks. Trends Genet (2004) 3.52
Dissection of the mammalian midbody proteome reveals conserved cytokinesis mechanisms. Science (2004) 3.48
Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases. BMC Bioinformatics (2007) 3.44
Why do hubs in the yeast protein interaction network tend to be essential: reexamining the connection between the network topology and essentiality. PLoS Comput Biol (2008) 3.41
Why do hubs tend to be essential in protein networks? PLoS Genet (2006) 3.29
T1DBase: integration and presentation of complex data for type 1 diabetes research. Nucleic Acids Res (2006) 3.25
Yeast two-hybrid systems and protein interaction mapping projects for yeast and worm. Yeast (2000) 2.51
A predicted interactome for Arabidopsis. Plant Physiol (2007) 2.41
The exocyst complex in polarized exocytosis. Int Rev Cytol (2004) 2.40
Evolutionary and physiological importance of hub proteins. PLoS Comput Biol (2006) 2.34
Protein interaction maps for model organisms. Nat Rev Mol Cell Biol (2001) 2.32
Exploration of biological network centralities with CentiBiN. BMC Bioinformatics (2006) 1.78
Local modularity measure for network clusterizations. Phys Rev E Stat Nonlin Soft Matter Phys (2005) 1.72
POINT: a database for the prediction of protein-protein interactions based on the orthologous interactome. Bioinformatics (2004) 1.58
Impact of schizophrenia candidate genes on schizotypy and cognitive endophenotypes at the population level. Biol Psychiatry (2007) 1.32
Human liver proteome project: plan, progress, and perspectives. Mol Cell Proteomics (2005) 1.15
Ulysses - an application for the projection of molecular interactions across species. Genome Biol (2005) 1.12
Ortholog-based protein-protein interaction prediction and its application to inter-species interactions. BMC Bioinformatics (2008) 1.12
Protein arrays: a versatile toolbox for target identification and monitoring of patient immune responses. Methods Mol Biol (2007) 0.88
Fine mapping of a linkage region on chromosome 17p13 reveals that GABARAP and DLG4 are associated with vulnerability to nicotine dependence in European-Americans. Hum Mol Genet (2006) 0.84
Normal development of fetal hepatic haematopoiesis during the second trimester of gestation is upregulated by fibronectin expression in the stromal cells of the portal triads. Rev Esp Enferm Dig (2007) 0.77
Ulk1 plays a critical role in the autophagic clearance of mitochondria and ribosomes during reticulocyte maturation. Blood (2008) 5.43
Selection of DDX5 as a novel internal control for Q-RT-PCR from microarray data using a block bootstrap re-sampling scheme. BMC Genomics (2007) 2.32
Shock wave therapy induces neovascularization at the tendon-bone junction. A study in rabbits. J Orthop Res (2003) 2.01
Hsp90-Cdc37 chaperone complex regulates Ulk1- and Atg13-mediated mitophagy. Mol Cell (2011) 1.91
Shock wave therapy for calcific tendinitis of the shoulder: a prospective clinical study with two-year follow-up. Am J Sports Med (2003) 1.69
POINT: a database for the prediction of protein-protein interactions based on the orthologous interactome. Bioinformatics (2004) 1.58
A stochastic differential equation model for quantifying transcriptional regulatory network in Saccharomyces cerevisiae. Bioinformatics (2005) 1.56
Phosphorylation and stabilization of HURP by Aurora-A: implication of HURP as a transforming target of Aurora-A. Mol Cell Biol (2005) 1.54
Wnt/beta-catenin signaling modulates survival of high glucose-stressed mesangial cells. J Am Soc Nephrol (2006) 1.50
PhosphoPOINT: a comprehensive human kinase interactome and phospho-protein database. Bioinformatics (2008) 1.47
Evolutionary optimization with data collocation for reverse engineering of biological networks. Bioinformatics (2004) 1.47
Treatment for osteonecrosis of the femoral head: comparison of extracorporeal shock waves with core decompression and bone-grafting. J Bone Joint Surg Am (2005) 1.44
The neurophysiological performance of visuospatial working memory in children with developmental coordination disorder. Dev Med Child Neurol (2012) 1.44
Identification of V23RalA-Ser194 as a critical mediator for Aurora-A-induced cellular motility and transformation by small pool expression screening. J Biol Chem (2005) 1.40
Fbx7 functions in the SCF complex regulating Cdk1-cyclin B-phosphorylated hepatoma up-regulated protein (HURP) proteolysis by a proline-rich region. J Biol Chem (2004) 1.38
Identification of a novel cell cycle regulated gene, HURP, overexpressed in human hepatocellular carcinoma. Oncogene (2003) 1.36
VEGFA upregulates FLJ10540 and modulates migration and invasion of lung cancer via PI3K/AKT pathway. PLoS One (2009) 1.28
Extracorporeal shock waves promote healing of collagenase-induced Achilles tendinitis and increase TGF-beta1 and IGF-I expression. J Orthop Res (2004) 1.23
Recruitment of mesenchymal stem cells and expression of TGF-beta 1 and VEGF in the early stage of shock wave-promoted bone regeneration of segmental defect in rats. J Orthop Res (2004) 1.22
Modulation of notch-1 signaling alleviates vascular endothelial growth factor-mediated diabetic nephropathy. Diabetes (2010) 1.21
Mesenchymal stem cells prolong composite tissue allotransplant survival in a swine model. Transplantation (2009) 1.18
Dkk-1 promotes angiogenic responses and cartilage matrix proteinase secretion in synovial fibroblasts from osteoarthritic joints. Arthritis Rheum (2012) 1.15
Improving disulfide connectivity prediction with sequential distance between oxidized cysteines. Bioinformatics (2005) 1.15
Aurora-A promotes gefitinib resistance via a NF-κB signaling pathway in p53 knockdown lung cancer cells. Biochem Biophys Res Commun (2011) 1.15
Dexamethasone induction of keloid regression through effective suppression of VEGF expression and keloid fibroblast proliferation. J Invest Dermatol (2006) 1.14
Inference of biochemical network models in S-system using multiobjective optimization approach. Bioinformatics (2008) 1.14
Ortholog-based protein-protein interaction prediction and its application to inter-species interactions. BMC Bioinformatics (2008) 1.12
Collapsin response mediator protein-1: a novel invasion-suppressor gene. Clin Exp Metastasis (2003) 1.12
Effect of sodium hyaluronate treatment on rotator cuff lesions without complete tears: a randomized, double-blind, placebo-controlled study. J Shoulder Elbow Surg (2009) 1.12
Dickkopf-1 promotes hyperglycemia-induced accumulation of mesangial matrix and renal dysfunction. J Am Soc Nephrol (2009) 1.11
Cysteine separations profiles on protein sequences infer disulfide connectivity. Bioinformatics (2004) 1.09
Treatment of osteonecrosis of the hip: comparison of extracorporeal shockwave with shockwave and alendronate. Arch Orthop Trauma Surg (2007) 1.09
Extracorporeal shock-wave therapy enhanced wound healing via increasing topical blood perfusion and tissue regeneration in a rat model of STZ-induced diabetes. Wound Repair Regen (2009) 1.08
Sustained Wnt/β-catenin signaling rescues high glucose induction of transforming growth factor-β1-mediated renal fibrosis. Am J Med Sci (2012) 1.07
Combination of microarray profiling and protein-protein interaction databases delineates the minimal discriminators as a metastasis network for esophageal squamous cell carcinoma. Int J Oncol (2009) 1.07
Control of Dkk-1 ameliorates chondrocyte apoptosis, cartilage destruction, and subchondral bone deterioration in osteoarthritic knees. Arthritis Rheum (2010) 1.06
An evolutionary algorithm for large traveling salesman problems. IEEE Trans Syst Man Cybern B Cybern (2004) 1.06
Long-term results of extracorporeal shockwave treatment for plantar fasciitis. Am J Sports Med (2006) 1.06
Rapid single cell detection of Staphylococcus aureus by aptamer-conjugated gold nanoparticles. Sci Rep (2013) 1.04
Shock wave treatment induces angiogenesis and mobilizes endogenous CD31/CD34-positive endothelial cells in a hindlimb ischemia model: implications for angiogenesis and vasculogenesis. J Thorac Cardiovasc Surg (2013) 1.01
Inhibition of cell migration by autophosphorylated mammalian sterile 20-like kinase 3 (MST3) involves paxillin and protein-tyrosine phosphatase-PEST. J Biol Chem (2006) 1.01
Identification of the substrates and interaction proteins of aurora kinases from a protein-protein interaction model. Mol Cell Proteomics (2003) 1.01
Shock wave treatment shows dose-dependent enhancement of bone mass and bone strength after fracture of the femur. Bone (2004) 1.00
Construction and analysis of the protein-protein interaction networks for schizophrenia, bipolar disorder, and major depression. BMC Bioinformatics (2011) 0.98
Heat shock protein 72 is associated with the hepatitis C virus replicase complex and enhances viral RNA replication. J Biol Chem (2010) 0.98
Gene expression profiles of the aurora family kinases. Gene Expr (2006) 0.97
Methyl antcinate A from Antrodia camphorata induces apoptosis in human liver cancer cells through oxidant-mediated cofilin- and Bax-triggered mitochondrial pathway. Chem Res Toxicol (2010) 0.97
Superoxide destabilization of beta-catenin augments apoptosis of high-glucose-stressed mesangial cells. Endocrinology (2008) 0.97
VNTRDB: a bacterial variable number tandem repeat locus database. Nucleic Acids Res (2006) 0.97
Detection of the inferred interaction network in hepatocellular carcinoma from EHCO (Encyclopedia of Hepatocellular Carcinoma genes Online). BMC Bioinformatics (2007) 0.97
Antitumor activity of the combination of an HSP90 inhibitor and a PI3K/mTOR dual inhibitor against cholangiocarcinoma. Oncotarget (2014) 0.95
A sesquiterpene lactone antrocin from Antrodia camphorata negatively modulates JAK2/STAT3 signaling via microRNA let-7c and induces apoptosis in lung cancer cells. Carcinogenesis (2013) 0.95
Antcin B and its ester derivative from Antrodia camphorata induce apoptosis in hepatocellular carcinoma cells involves enhancing oxidative stress coincident with activation of intrinsic and extrinsic apoptotic pathway. J Agric Food Chem (2011) 0.95
Glycogen synthase kinase 3beta interacts with and phosphorylates the spindle-associated protein astrin. J Biol Chem (2007) 0.94
Targeted methylation of CMV and E1A viral promoters. Biochem Biophys Res Commun (2010) 0.94
Navigation-assisted total knee arthroplasty for a knee with malunion of the distal femur. J Arthroplasty (2008) 0.93
Homology modeling, docking, and molecular dynamics reveal HR1039 as a potent inhibitor of 2009 A(H1N1) influenza neuraminidase. Biophys Chem (2009) 0.93
Trifluoperazine, an antipsychotic agent, inhibits cancer stem cell growth and overcomes drug resistance of lung cancer. Am J Respir Crit Care Med (2012) 0.93
Overexpression of T-LAK cell-originated protein kinase predicts poor prognosis in patients with stage I lung adenocarcinoma. Cancer Sci (2012) 0.93
From midbody protein-protein interaction network construction to novel regulators in cytokinesis. J Proteome Res (2009) 0.92
Gene expression-based chemical genomics identifies potential therapeutic drugs in hepatocellular carcinoma. PLoS One (2011) 0.92
Aberrant nuclear localization of EBP50 promotes colorectal carcinogenesis in xenotransplanted mice by modulating TCF-1 and β-catenin interactions. J Clin Invest (2012) 0.92
hNinein is required for targeting spindle-associated protein Astrin to the centrosome during the S and G2 phases. Exp Cell Res (2007) 0.92
Reconstruction of human protein interolog network using evolutionary conserved network. BMC Bioinformatics (2007) 0.92
Suppressed TGF-beta1 expression is correlated with up-regulation of matrix metalloproteinase-13 in keloid regression after flashlamp pulsed-dye laser treatment. Lasers Surg Med (2005) 0.91
Integrated minimum-set primers and unique probe design algorithms for differential detection on symptom-related pathogens. Bioinformatics (2005) 0.91
MicroRNA-29a protects against acute liver injury in a mouse model of obstructive jaundice via inhibition of the extrinsic apoptosis pathway. Apoptosis (2014) 0.91
Shockwaves enhance the osteogenetic gene expression in marrow stromal cells from hips with osteonecrosis. Chang Gung Med J (2011) 0.91
Increased Dickkopf-1 expression accelerates bone cell apoptosis in femoral head osteonecrosis. Bone (2009) 0.90
Pterostilbene, a bioactive component of blueberries, suppresses the generation of breast cancer stem cells within tumor microenvironment and metastasis via modulating NF-κB/microRNA 448 circuit. Mol Nutr Food Res (2013) 0.90
Biological effects of extracorporeal shockwave in bone healing: a study in rabbits. Arch Orthop Trauma Surg (2008) 0.90
Comparative serum proteome expression of osteonecrosis of the femoral head in adults. Bone (2008) 0.90
Chromosomal aberrations of malignant pleural effusions of lung adenocarcinoma: different cytogenetic changes are correlated with genders and smoking habits. Lung Cancer (2007) 0.90
VEGF modulates angiogenesis and osteogenesis in shockwave-promoted fracture healing in rabbits. J Surg Res (2010) 0.90
The Aurora kinase inhibitor VE-465 has anticancer effects in pre-clinical studies of human hepatocellular carcinoma. J Hepatol (2008) 0.90
Global gene expression profiling of dimethylnitrosamine-induced liver fibrosis: from pathological and biochemical data to microarray analysis. Gene Expr (2006) 0.89
Activation of ERK and p38 kinase mediated keloid fibroblast apoptosis after flashlamp pulsed-dye laser treatment. Lasers Surg Med (2005) 0.89
Woodward procedure improves shoulder function in Sprengel deformity. Chang Gung Med J (2011) 0.89