Published in BMC Syst Biol on October 12, 2011
Identifying protein interaction subnetworks by a bagging Markov random field-based method. Nucleic Acids Res (2012) 1.07
Incorporating prior knowledge into Gene Network Study. Bioinformatics (2013) 1.06
Quantification of biological network perturbations for mechanistic insight and diagnostics using two-layer causal models. BMC Bioinformatics (2014) 1.00
Molecular pathway identification using biological network-regularized logistic models. BMC Genomics (2013) 0.98
Gene regulatory networks and their applications: understanding biological and medical problems in terms of networks. Front Cell Dev Biol (2014) 0.90
A classification framework applied to cancer gene expression profiles. J Healthc Eng (2013) 0.89
Comparative study of computational methods for reconstructing genetic networks of cancer-related pathways. Cancer Inform (2014) 0.88
Network-based inference framework for identifying cancer genes from gene expression data. Biomed Res Int (2013) 0.84
Antiestrogen Resistance and the Application of Systems Biology. Drug Discov Today Dis Mech (2012) 0.82
Biomarker gene signature discovery integrating network knowledge. Biology (Basel) (2012) 0.81
Pathway mapping and development of disease-specific biomarkers: protein-based network biomarkers. J Cell Mol Med (2015) 0.80
A Glimpse to Background and Characteristics of Major Molecular Biological Networks. Biomed Res Int (2015) 0.79
Modeling autism: a systems biology approach. J Clin Bioinforma (2012) 0.79
An integrative proteomics and interaction network-based classifier for prostate cancer diagnosis. PLoS One (2013) 0.79
Correlation set analysis: detecting active regulators in disease populations using prior causal knowledge. BMC Bioinformatics (2012) 0.78
SPICE: discovery of phenotype-determining component interplays. BMC Syst Biol (2012) 0.76
Identifying module biomarker in type 2 diabetes mellitus by discriminative area of functional activity. BMC Bioinformatics (2015) 0.76
BMRF-MI: integrative identification of protein interaction network by modeling the gene dependency. BMC Genomics (2015) 0.76
Weighted-SAMGSR: combining significance analysis of microarray-gene set reduction algorithm with pathway topology-based weights to select relevant genes. Biol Direct (2016) 0.75
Pathway activity inference for multiclass disease classification through a mathematical programming optimisation framework. BMC Bioinformatics (2014) 0.75
GSNFS: Gene subnetwork biomarker identification of lung cancer expression data. BMC Med Genomics (2016) 0.75
Identifying the gene signatures from gene-pathway bipartite network guarantees the robust model performance on predicting the cancer prognosis. Biomed Res Int (2014) 0.75
A machine learning approach for the identification of key markers involved in brain development from single-cell transcriptomic data. BMC Genomics (2016) 0.75
CyNetSVM: A Cytoscape App for Cancer Biomarker Identification Using Network Constrained Support Vector Machines. PLoS One (2017) 0.75
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A (2005) 167.46
Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci U S A (2001) 132.88
Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res (2003) 103.76
DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol (2003) 84.79
A gene-expression signature as a predictor of survival in breast cancer. N Engl J Med (2002) 58.15
A census of human cancer genes. Nat Rev Cancer (2004) 36.20
Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer. Lancet (2005) 29.45
Cancer genes and the pathways they control. Nat Med (2004) 24.22
Discovering regulatory and signalling circuits in molecular interaction networks. Bioinformatics (2002) 12.88
Network-based classification of breast cancer metastasis. Mol Syst Biol (2007) 12.18
Human protein reference database--2006 update. Nucleic Acids Res (2006) 12.16
On differential variability of expression ratios: improving statistical inference about gene expression changes from microarray data. J Comput Biol (2001) 10.48
Network-constrained regularization and variable selection for analysis of genomic data. Bioinformatics (2008) 6.01
On parametric empirical Bayes methods for comparing multiple groups using replicated gene expression profiles. Stat Med (2003) 4.44
Pathways to the analysis of microarray data. Trends Biotechnol (2005) 3.88
A Markov random field model for network-based analysis of genomic data. Bioinformatics (2007) 2.93
New feature subset selection procedures for classification of expression profiles. Genome Biol (2002) 2.54
Reversal of the estrogen receptor negative phenotype in breast cancer and restoration of antiestrogen response. Clin Cancer Res (2007) 2.38
Dynamic modelling of oestrogen signalling and cell fate in breast cancer cells. Nat Rev Cancer (2011) 1.51
Network-based support vector machine for classification of microarray samples. BMC Bioinformatics (2009) 1.49
Endocrine resistance associated with activated ErbB system in breast cancer cells is reversed by inhibiting MAPK or PI3K/Akt signaling pathways. Int J Cancer (2010) 1.31
Ras/Raf-1/MAPK pathway mediates response to tamoxifen but not chemotherapy in breast cancer patients. Clin Cancer Res (2009) 1.25
JANUS under stress--role of JAK/STAT signaling pathway in vascular diseases. Vascul Pharmacol (2005) 1.20
Cooperation of Notch and Ras/MAPK signaling pathways in human breast carcinogenesis. Mol Cancer (2009) 1.20
Transforming growth factor-beta and breast cancer: Transforming growth factor-beta/SMAD signaling defects and cancer. Breast Cancer Res (2000) 1.11
Experimental viraemia and transmission of Japanese encephalitis virus by mosquitoes in ardeid birds. Indian J Med Res (1977) 0.93
Implication of protein tyrosine phosphatase 1B in MCF-7 cell proliferation and resistance to 4-OH tamoxifen. Biochem Biophys Res Commun (2009) 0.85
Age-specific relevance of usual blood pressure to vascular mortality: a meta-analysis of individual data for one million adults in 61 prospective studies. Lancet (2002) 40.37
Body-mass index and cause-specific mortality in 900 000 adults: collaborative analyses of 57 prospective studies. Lancet (2009) 26.09
Newly identified loci that influence lipid concentrations and risk of coronary artery disease. Nat Genet (2008) 25.83
Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index. Nat Genet (2010) 23.08
Common variants at 30 loci contribute to polygenic dyslipidemia. Nat Genet (2008) 20.66
Guidelines for the use and interpretation of assays for monitoring autophagy. Autophagy (2012) 20.08
New genetic loci implicated in fasting glucose homeostasis and their impact on type 2 diabetes risk. Nat Genet (2010) 17.89
Blood cholesterol and vascular mortality by age, sex, and blood pressure: a meta-analysis of individual data from 61 prospective studies with 55,000 vascular deaths. Lancet (2007) 15.27
Genetic variants in novel pathways influence blood pressure and cardiovascular disease risk. Nature (2011) 13.25
Genome-wide association study identifies eight loci associated with blood pressure. Nat Genet (2009) 12.44
Plasma HDL cholesterol and risk of myocardial infarction: a mendelian randomisation study. Lancet (2012) 12.10
Large-scale association analysis identifies new risk loci for coronary artery disease. Nat Genet (2012) 7.59
Copy number analysis indicates monoclonal origin of lethal metastatic prostate cancer. Nat Med (2009) 6.61
C-reactive protein, fibrinogen, and cardiovascular disease prediction. N Engl J Med (2012) 6.39
Adult SVZ stem cells lie in a vascular niche: a quantitative analysis of niche cell-cell interactions. Cell Stem Cell (2008) 5.76
Genetic Loci associated with C-reactive protein levels and risk of coronary heart disease. JAMA (2009) 5.32
MTHFR 677C-->T polymorphism and risk of coronary heart disease: a meta-analysis. JAMA (2002) 5.29
Forty-three loci associated with plasma lipoprotein size, concentration, and cholesterol content in genome-wide analysis. PLoS Genet (2009) 4.71
Interleukin-6 receptor pathways in coronary heart disease: a collaborative meta-analysis of 82 studies. Lancet (2012) 4.63
The timing of cortical neurogenesis is encoded within lineages of individual progenitor cells. Nat Neurosci (2006) 4.49
A genome-wide approach accounting for body mass index identifies genetic variants influencing fasting glycemic traits and insulin resistance. Nat Genet (2012) 4.37
Facts and recommendations about total homocysteine determinations: an expert opinion. Clin Chem (2004) 4.31
Susceptibility to coronary artery disease and diabetes is encoded by distinct, tightly linked SNPs in the ANRIL locus on chromosome 9p. Hum Mol Genet (2007) 4.09
Genetic risk factors for ischaemic stroke and its subtypes (the METASTROKE collaboration): a meta-analysis of genome-wide association studies. Lancet Neurol (2012) 3.93
Berberine is a novel cholesterol-lowering drug working through a unique mechanism distinct from statins. Nat Med (2004) 3.92
Lipid-related markers and cardiovascular disease prediction. JAMA (2012) 3.91
Association between C reactive protein and coronary heart disease: mendelian randomisation analysis based on individual participant data. BMJ (2011) 3.65
Utility of TICS-M for the assessment of cognitive function in older adults. Int J Geriatr Psychiatry (2003) 3.56
The properties of high-dimensional data spaces: implications for exploring gene and protein expression data. Nat Rev Cancer (2008) 3.43
Identification of a putative intestinal stem cell and early lineage marker; musashi-1. Differentiation (2003) 3.41
Genome-wide association study identifies six new loci influencing pulse pressure and mean arterial pressure. Nat Genet (2011) 3.40
Incident dementia and blood pressure lowering in the Hypertension in the Very Elderly Trial cognitive function assessment (HYVET-COG): a double-blind, placebo controlled trial. Lancet Neurol (2008) 3.28
Novel loci for adiponectin levels and their influence on type 2 diabetes and metabolic traits: a multi-ethnic meta-analysis of 45,891 individuals. PLoS Genet (2012) 3.21
Pillbox organizers are associated with improved adherence to HIV antiretroviral therapy and viral suppression: a marginal structural model analysis. Clin Infect Dis (2007) 3.16
Myeloid-derived suppressor cells suppress antitumor immune responses through IDO expression and correlate with lymph node metastasis in patients with breast cancer. J Immunol (2013) 2.96
The 'obligate diploid' Candida albicans forms mating-competent haploids. Nature (2013) 2.93
Lipids and lipoproteins and risk of different vascular events in the MRC/BHF Heart Protection Study. Circulation (2012) 2.90
Plasma microRNA-122 as a biomarker for viral-, alcohol-, and chemical-related hepatic diseases. Clin Chem (2010) 2.86
Adult SVZ lineage cells home to and leave the vascular niche via differential responses to SDF1/CXCR4 signaling. Cell Stem Cell (2010) 2.85
Antiestrogen resistance in breast cancer and the role of estrogen receptor signaling. Oncogene (2003) 2.82
Meta-analysis of soy intake and breast cancer risk. J Natl Cancer Inst (2006) 2.79
Cadmium mimics the in vivo effects of estrogen in the uterus and mammary gland. Nat Med (2003) 2.77
Auditing as part of the terminology design life cycle. J Am Med Inform Assoc (2006) 2.73
Hgc1, a novel hypha-specific G1 cyclin-related protein regulates Candida albicans hyphal morphogenesis. EMBO J (2004) 2.72
Bacterial peptidoglycan triggers Candida albicans hyphal growth by directly activating the adenylyl cyclase Cyr1p. Cell Host Microbe (2008) 2.68
The importance of reducing SFA to limit CHD. Br J Nutr (2011) 2.60
Large-scale gene-centric meta-analysis across 39 studies identifies type 2 diabetes loci. Am J Hum Genet (2012) 2.53
The Genia Event and Protein Coreference tasks of the BioNLP Shared Task 2011. BMC Bioinformatics (2012) 2.45
Mitotic rate and younger age are predictors of sentinel lymph node positivity: lessons learned from the generation of a probabilistic model. Ann Surg Oncol (2004) 2.42
Calibrating the end-Permian mass extinction. Science (2011) 2.41
Effects of folic acid supplementation on overall and site-specific cancer incidence during the randomised trials: meta-analyses of data on 50,000 individuals. Lancet (2013) 2.37
Homocysteine, silent brain infarcts, and white matter lesions: The Rotterdam Scan Study. Ann Neurol (2002) 2.30
Diagnosing and responding to violations in the positivity assumption. Stat Methods Med Res (2010) 2.29
Global transcriptome analysis of the heat shock response of Shewanella oneidensis. J Bacteriol (2004) 2.28
Analysis of DNA copy number alterations in ovarian serous tumors identifies new molecular genetic changes in low-grade and high-grade carcinomas. Cancer Res (2009) 2.25
The sedimentation sign for differential diagnosis of lumbar spinal stenosis. Spine (Phila Pa 1976) (2013) 2.24
Nuclear envelope dystrophies show a transcriptional fingerprint suggesting disruption of Rb-MyoD pathways in muscle regeneration. Brain (2006) 2.22
Genome-wide association identifies nine common variants associated with fasting proinsulin levels and provides new insights into the pathophysiology of type 2 diabetes. Diabetes (2011) 2.21
Human mesenchymal stem cells stimulated by TNF-alpha, LPS, or hypoxia produce growth factors by an NF kappa B- but not JNK-dependent mechanism. Am J Physiol Cell Physiol (2008) 2.18
Analysis of error concentrations in SNOMED. AMIA Annu Symp Proc (2007) 2.18
Galectin-1 deactivates classically activated microglia and protects from inflammation-induced neurodegeneration. Immunity (2012) 2.18
Meta-analysis of Dense Genecentric Association Studies Reveals Common and Uncommon Variants Associated with Height. Am J Hum Genet (2010) 2.15
Why don't they listen? Adherence to recommendations of infectious disease consultations. Clin Infect Dis (2004) 2.13
Azithromycin for acute bronchitis: a randomised, double-blind, controlled trial. Lancet (2002) 2.09
Identification of molecular pathway aberrations in uterine serous carcinoma by genome-wide analyses. J Natl Cancer Inst (2012) 2.09
Cyclin-dependent kinases control septin phosphorylation in Candida albicans hyphal development. Dev Cell (2007) 2.07
Cause-specific mortality in old age in relation to body mass index in middle age and in old age: follow-up of the Whitehall cohort of male civil servants. Int J Epidemiol (2005) 1.98
Counterfactual links to the proportion of treatment effect explained by a surrogate marker. Biometrics (2005) 1.98
Obesity hypoventilation syndrome: prevalence and predictors in patients with obstructive sleep apnea. Sleep Breath (2007) 1.98
Transient improvement in cognitive function and synaptic plasticity in rats following cancer chemotherapy. Clin Cancer Res (2006) 1.97
Large-scale gene-centric meta-analysis across 32 studies identifies multiple lipid loci. Am J Hum Genet (2012) 1.96
Effect of oral vitamin B-12 with or without folic acid on cognitive function in older people with mild vitamin B-12 deficiency: a randomized, placebo-controlled trial. Am J Clin Nutr (2006) 1.91
Clinical relevance of low serum vitamin B12 concentrations in older people: the Banbury B12 study. Age Ageing (2006) 1.86
Meta-analysis in more than 17,900 cases of ischemic stroke reveals a novel association at 12q24.12. Neurology (2014) 1.85
Endocannabinoids facilitate the induction of LTP in the hippocampus. Nat Neurosci (2002) 1.84
MicroRNA-125a-5p partly regulates the inflammatory response, lipid uptake, and ORP9 expression in oxLDL-stimulated monocyte/macrophages. Cardiovasc Res (2009) 1.83
Neonatal antidepressant exposure has lasting effects on behavior and serotonin circuitry. Neuropsychopharmacology (2006) 1.83
Human X-box binding protein-1 confers both estrogen independence and antiestrogen resistance in breast cancer cell lines. FASEB J (2007) 1.82
Down-regulated microRNA-152 induces aberrant DNA methylation in hepatitis B virus-related hepatocellular carcinoma by targeting DNA methyltransferase 1. Hepatology (2010) 1.81
Assessing the effectiveness of antiretroviral adherence interventions. Using marginal structural models to replicate the findings of randomized controlled trials. J Acquir Immune Defic Syndr (2006) 1.81
Secondhand smoke exposure, pulmonary function, and cardiovascular mortality. Ann Epidemiol (2007) 1.76
Impact of common genetic variation on response to simvastatin therapy among 18 705 participants in the Heart Protection Study. Eur Heart J (2012) 1.75
A genome-wide association search for type 2 diabetes genes in African Americans. PLoS One (2012) 1.72
DNA copy numbers profiles in affinity-purified ovarian clear cell carcinoma. Clin Cancer Res (2010) 1.71
Candida albicans Cyr1, Cap1 and G-actin form a sensor/effector apparatus for activating cAMP synthesis in hyphal growth. Mol Microbiol (2009) 1.68
NK cell CD16 surface expression and function is regulated by a disintegrin and metalloprotease-17 (ADAM17). Blood (2013) 1.66
Complete genome analysis of RFLP 184 isolates of porcine reproductive and respiratory syndrome virus. Virus Res (2006) 1.66
FTIP1 is an essential regulator required for florigen transport. PLoS Biol (2012) 1.61
Selective butyrylcholinesterase inhibition elevates brain acetylcholine, augments learning and lowers Alzheimer beta-amyloid peptide in rodent. Proc Natl Acad Sci U S A (2005) 1.61
Differential dependency network analysis to identify condition-specific topological changes in biological networks. Bioinformatics (2008) 1.56
The joint effects of apolipoprotein B, apolipoprotein A1, LDL cholesterol, and HDL cholesterol on risk: 3510 cases of acute myocardial infarction and 9805 controls. Eur Heart J (2009) 1.52
Dynamic modelling of oestrogen signalling and cell fate in breast cancer cells. Nat Rev Cancer (2011) 1.51