Published in PLoS One on July 16, 2013
A DNA methylation network interaction measure, and detection of network oncomarkers. PLoS One (2014) 0.86
Intra-Gene DNA Methylation Variability Is a Clinically Independent Prognostic Marker in Women's Cancers. PLoS One (2015) 0.77
Changes of bivalent chromatin coincide with increased expression of developmental genes in cancer. Sci Rep (2016) 0.76
Variations in the Intragene Methylation Profiles Hallmark Induced Pluripotency. Biomed Res Int (2015) 0.75
Parenclitic Network Analysis of Methylation Data for Cancer Identification. PLoS One (2017) 0.75
Bioconductor: open software development for computational biology and bioinformatics. Genome Biol (2004) 143.19
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res (2002) 76.95
The fundamental role of epigenetic events in cancer. Nat Rev Genet (2002) 30.05
Control of developmental regulators by Polycomb in human embryonic stem cells. Cell (2006) 28.21
Supervised risk predictor of breast cancer based on intrinsic subtypes. J Clin Oncol (2009) 22.22
The mammalian epigenome. Cell (2007) 18.13
An embryonic stem cell-like gene expression signature in poorly differentiated aggressive human tumors. Nat Genet (2008) 17.67
Functions of DNA methylation: islands, start sites, gene bodies and beyond. Nat Rev Genet (2012) 15.21
Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer. Nat Genet (2006) 10.47
The epigenetic progenitor origin of human cancer. Nat Rev Genet (2006) 9.65
Epigenetic stem cell signature in cancer. Nat Genet (2006) 9.62
A stem cell-like chromatin pattern may predispose tumor suppressor genes to DNA hypermethylation and heritable silencing. Nat Genet (2007) 9.47
Increased methylation variation in epigenetic domains across cancer types. Nat Genet (2011) 8.92
Aging and environmental exposures alter tissue-specific DNA methylation dependent upon CpG island context. PLoS Genet (2009) 7.07
Mapping the cancer genome. Pinpointing the genes involved in cancer will help chart a new course across the complex landscape of human malignancies. Sci Am (2007) 4.66
The DNA methylome of human peripheral blood mononuclear cells. PLoS Biol (2010) 4.25
A DNA hypermethylation module for the stem/progenitor cell signature of cancer. Genome Res (2012) 1.92
Significance analysis and statistical dissection of variably methylated regions. Biostatistics (2011) 1.74
Epigenetic variability in cells of normal cytology is associated with the risk of future morphological transformation. Genome Med (2012) 1.65
Differential variability improves the identification of cancer risk markers in DNA methylation studies profiling precursor cancer lesions. Bioinformatics (2012) 1.51
The dynamics and prognostic potential of DNA methylation changes at stem cell gene loci in women's cancer. PLoS Genet (2012) 1.33
Epigenetics--DNA-based mirror of our environment? Dis Markers (2007) 1.04
Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution. Nature (2009) 18.08
CpG island methylator phenotype underlies sporadic microsatellite instability and is tightly associated with BRAF mutation in colorectal cancer. Nat Genet (2006) 13.63
MicroRNA expression profiling of human breast cancer identifies new markers of tumor subtype. Genome Biol (2007) 6.41
Age-dependent DNA methylation of genes that are suppressed in stem cells is a hallmark of cancer. Genome Res (2010) 6.03
Differential oestrogen receptor binding is associated with clinical outcome in breast cancer. Nature (2012) 5.84
High-resolution aCGH and expression profiling identifies a novel genomic subtype of ER negative breast cancer. Genome Biol (2007) 4.70
Osteoclast differentiation factor RANKL controls development of progestin-driven mammary cancer. Nature (2010) 4.01
A genome-wide association study identifies susceptibility loci for ovarian cancer at 2q31 and 8q24. Nat Genet (2010) 3.86
FBXW7/hCDC4 is a general tumor suppressor in human cancer. Cancer Res (2007) 3.79
Allele-specific up-regulation of FGFR2 increases susceptibility to breast cancer. PLoS Biol (2008) 3.49
An epigenetic signature in peripheral blood predicts active ovarian cancer. PLoS One (2009) 3.33
Independent surrogate variable analysis to deconvolve confounding factors in large-scale microarray profiling studies. Bioinformatics (2011) 2.91
The relationship between distance to hospital and patient mortality in emergencies: an observational study. Emerg Med J (2007) 2.87
hCDC4 gene mutations in endometrial cancer. Cancer Res (2002) 2.36
Genome-wide DNA methylation analysis for diabetic nephropathy in type 1 diabetes mellitus. BMC Med Genomics (2010) 2.34
An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform. Epigenetics (2013) 2.28
ChAMP: 450k Chip Analysis Methylation Pipeline. Bioinformatics (2013) 2.21
Whole exome sequencing to identify a novel gene (caveolin-1) associated with human pulmonary arterial hypertension. Circ Cardiovasc Genet (2012) 2.16
DNA methylation in serum of breast cancer patients: an independent prognostic marker. Cancer Res (2003) 2.14
A comprehensive analysis of prognostic signatures reveals the high predictive capacity of the proliferation, immune response and RNA splicing modules in breast cancer. Breast Cancer Res (2008) 2.09
Breast cancer DNA methylation profiles in cancer cells and tumor stroma: association with HER-2/neu status in primary breast cancer. Cancer Res (2006) 1.99
Integrated genetic and epigenetic analysis identifies haplotype-specific methylation in the FTO type 2 diabetes and obesity susceptibility locus. PLoS One (2010) 1.93
The sex hormone system in carriers of BRCA1/2 mutations: a case-control study. Lancet Oncol (2013) 1.83
Methylation changes in faecal DNA: a marker for colorectal cancer screening? Lancet (2004) 1.80
Age-associated epigenetic drift: implications, and a case of epigenetic thrift? Hum Mol Genet (2013) 1.76
Genome-wide DNA methylation analysis of archival formalin-fixed paraffin-embedded tissue using the Illumina Infinium HumanMethylation27 BeadChip. Methods (2010) 1.71
Epigenetic variability in cells of normal cytology is associated with the risk of future morphological transformation. Genome Med (2012) 1.65
Role of BMPR2 alternative splicing in heritable pulmonary arterial hypertension penetrance. Circulation (2012) 1.64
Circulating tumor-specific DNA: a marker for monitoring efficacy of adjuvant therapy in cancer patients. Cancer Res (2005) 1.62
Comparative methylome analysis of benign and malignant peripheral nerve sheath tumors. Genome Res (2011) 1.60
Hypomethylation and hypermethylation of DNA in Wilms tumors. Oncogene (2002) 1.59
Unrecognized glucose intolerance is common in pulmonary arterial hypertension. J Heart Lung Transplant (2011) 1.58
Embryonic growth-associated protein is one subunit of a novel N-terminal acetyltransferase complex essential for embryonic vascular development. Circ Res (2006) 1.54
DNA hypomethylation is prevalent even in low-grade breast cancers. Cancer Biol Ther (2004) 1.53
Differential network entropy reveals cancer system hallmarks. Sci Rep (2012) 1.52
Differential variability improves the identification of cancer risk markers in DNA methylation studies profiling precursor cancer lesions. Bioinformatics (2012) 1.51
Mutation of hCDC4 leads to cell cycle deregulation of cyclin E in cancer. Cancer Res (2004) 1.45
HOXA11 DNA methylation--a novel prognostic biomarker in ovarian cancer. Int J Cancer (2008) 1.44
Interaction of interleukin-6 and the BMP pathway in pulmonary smooth muscle. Am J Physiol Lung Cell Mol Physiol (2007) 1.42
Inhalation of Stachybotrys chartarum evokes pulmonary arterial remodeling in mice, attenuated by Rho-kinase inhibitor. Mycopathologia (2011) 1.42
Differential expression of selected histone modifier genes in human solid cancers. BMC Genomics (2006) 1.39
The dynamics and prognostic potential of DNA methylation changes at stem cell gene loci in women's cancer. PLoS Genet (2012) 1.33
ESR1 gene amplification in breast cancer: a common phenomenon? Nat Genet (2008) 1.33
BEX2 is overexpressed in a subset of primary breast cancers and mediates nerve growth factor/nuclear factor-kappaB inhibition of apoptosis in breast cancer cell lines. Cancer Res (2007) 1.33
Effects of common germline genetic variation in cell cycle control genes on breast cancer survival: results from a population-based cohort. Breast Cancer Res (2008) 1.28
A comparison of feature selection and classification methods in DNA methylation studies using the Illumina Infinium platform. BMC Bioinformatics (2012) 1.26
An integrative network algorithm identifies age-associated differential methylation interactome hotspots targeting stem-cell differentiation pathways. Sci Rep (2013) 1.26
Molecular effects of loss of BMPR2 signaling in smooth muscle in a transgenic mouse model of PAH. Am J Physiol Lung Cell Mol Physiol (2007) 1.25
Cytoskeletal defects in Bmpr2-associated pulmonary arterial hypertension. Am J Physiol Lung Cell Mol Physiol (2011) 1.25
Meta-analysis of IDH-mutant cancers identifies EBF1 as an interaction partner for TET2. Nat Commun (2013) 1.21
Low-voltage-activated (T-type) calcium channels control proliferation of human pulmonary artery myocytes. Circ Res (2005) 1.19
Histone deacetylase inhibitor enhances recovery after AKI. J Am Soc Nephrol (2013) 1.19
Recruitment of newly diagnosed ovarian cancer patients proved challenging in a multicentre biobanking study. J Clin Epidemiol (2010) 1.18
Common germline polymorphisms in COMT, CYP19A1, ESR1, PGR, SULT1E1 and STS and survival after a diagnosis of breast cancer. Int J Cancer (2009) 1.15
Evidence for right ventricular lipotoxicity in heritable pulmonary arterial hypertension. Am J Respir Crit Care Med (2014) 1.14
Disruption of bone morphogenetic protein receptor 2 (BMPR2) in mammary tumors promotes metastases through cell autonomous and paracrine mediators. Proc Natl Acad Sci U S A (2011) 1.14
The pathology of bleomycin-induced fibrosis is associated with loss of resident lung mesenchymal stem cells that regulate effector T-cell proliferation. Stem Cells (2011) 1.12
Cellular network entropy as the energy potential in Waddington's differentiation landscape. Sci Rep (2013) 1.12
Genome-wide age-related changes in DNA methylation and gene expression in human PBMCs. Age (Dordr) (2014) 1.12
Interferon-beta treatment of cervical keratinocytes naturally infected with human papillomavirus 16 episomes promotes rapid reduction in episome numbers and emergence of latent integrants. Carcinogenesis (2006) 1.11
Using high-density DNA methylation arrays to profile copy number alterations. Genome Biol (2014) 1.11
Cyclin-dependent kinase subunit (Cks) 1 or Cks2 overexpression overrides the DNA damage response barrier triggered by activated oncoproteins. Proc Natl Acad Sci U S A (2011) 1.11
Role of DNA methylation and epigenetic silencing of HAND2 in endometrial cancer development. PLoS Med (2013) 1.10
Murine pulmonary response to chronic hypoxia is strain specific. Exp Lung Res (2008) 1.09
Distribution of breakpoints on chromosome 18 in breast, colorectal, and pancreatic carcinoma cell lines. Cancer Genet Cytogenet (2006) 1.08
Testosterone negatively regulates right ventricular load stress responses in mice. Pulm Circ (2012) 1.07
Speed-dependent cellular decision making in nonequilibrium genetic circuits. PLoS One (2012) 1.07
DNA methylation in serum and tumors of cervical cancer patients. Clin Cancer Res (2004) 1.06
Oxidative injury is a common consequence of BMPR2 mutations. Pulm Circ (2011) 1.06
Prognostic DNA methylation marker in serum of cancer patients. Ann N Y Acad Sci (2004) 1.06
Methylated DNA as a possible screening marker for neoplastic disease in several body fluids. Expert Rev Mol Diagn (2003) 1.06
Methylation status and expression of human telomerase reverse transcriptase in ovarian and cervical cancer. Gynecol Oncol (2004) 1.06
Interleukin-6 causes mild pulmonary hypertension and augments hypoxia-induced pulmonary hypertension in mice. Chest (2005) 1.05
DNA methylation analysis in liquid-based cytology for cervical cancer screening. Int J Cancer (2009) 1.04
ACE2 improves right ventricular function in a pressure overload model. PLoS One (2011) 1.03
Physiologic and molecular consequences of endothelial Bmpr2 mutation. Respir Res (2011) 1.03
Gender, sex hormones and pulmonary hypertension. Pulm Circ (2013) 1.02
Inactivation of FBXW7/hCDC4-β expression by promoter hypermethylation is associated with favorable prognosis in primary breast cancer. Breast Cancer Res (2010) 1.01
Idiopathic and heritable PAH perturb common molecular pathways, correlated with increased MSX1 expression. Pulm Circ (2011) 1.00
Engineering of stable bispecific antibodies targeting IL-17A and IL-23. Protein Eng Des Sel (2009) 1.00
Underlying mechanisms of ovarian cancer risk reduction after tubal ligation. Acta Obstet Gynecol Scand (2011) 0.99
BMP signaling controls PASMC KV channel expression in vitro and in vivo. Am J Physiol Lung Cell Mol Physiol (2005) 0.99
Methylated DNA collected by tampons--a new tool to detect endometrial cancer. Cancer Epidemiol Biomarkers Prev (2004) 0.99
Cyclin E dysregulation and chromosomal instability in endometrial cancer. Oncogene (2004) 0.99
CDK-mediated activation of the SCF(FBXO) (28) ubiquitin ligase promotes MYC-driven transcription and tumourigenesis and predicts poor survival in breast cancer. EMBO Mol Med (2013) 0.99
Analysis of methylated genes in peritoneal fluids of ovarian cancer patients: a new prognostic tool. Clin Chem (2004) 0.98
Timing cellular decision making under noise via cell-cell communication. PLoS One (2009) 0.98
The 20S proteasome splicing activity discovered by SpliceMet. PLoS Comput Biol (2010) 0.96
Analysis of aberrant DNA methylation and human papillomavirus DNA in cervicovaginal specimens to detect invasive cervical cancer and its precursors. Clin Cancer Res (2004) 0.96
Network, degeneracy and bow tie. Integrating paradigms and architectures to grasp the complexity of the immune system. Theor Biol Med Model (2010) 0.96
Loss of imprinting and aberrant methylation of IGF2 in placentas from pregnancies complicated with fetal growth restriction. Int J Mol Med (2011) 0.96
Co-amplification of 8p12 and 11q13 in breast cancers is not the result of a single genomic event. Genes Chromosomes Cancer (2007) 0.96
Interaction between bone morphogenetic protein receptor type 2 and estrogenic compounds in pulmonary arterial hypertension. Pulm Circ (2013) 0.95
BMPR2 expression is suppressed by signaling through the estrogen receptor. Biol Sex Differ (2012) 0.95