Recurrent patterns of DNA methylation in theZNF154,CASP8, andVHLpromoters across a wide spectrum of human solid epithelial tumors and cancer cell lines

ZF-CxxC domain-containing proteins, CpG islands and the chromatin connection

(2013) Hannah K. Long et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Genomic insights into cancer-associated aberrant CpG island hypermethylation

(2013) D. Sproul et al.   Briefings in Functional Genomics

Batch Effects and Pathway Analysis: Two Potential Perils in Cancer Studies Involving DNA Methylation Array Analysis

(2013) K. N. Harper et al.   CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION

DNA Methylation Biomarkers for Noninvasive Diagnosis of Colorectal Cancer

(2013) F. J. Carmona et al.   Cancer Prevention Research

Unique DNA Methylation Loci Distinguish Anatomic Site and HPV Status in Head and Neck Squamous Cell Carcinoma

(2013) R. A. Lleras et al.   CLINICAL CANCER RESEARCH

Discovery of cross-reactive probes and polymorphic CpGs in the Illumina Infinium HumanMethylation450 microarray

(2013) Yi-an Chen et al.   Epigenetics

Dynamic DNA methylation across diverse human cell lines and tissues

(2013) K. E. Varley et al.   GENOME RESEARCH

Methylated DNA and microRNA in Body Fluids as Biomarkers for Cancer Detection

(2013) Yanning Ma et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Integrated genomic characterization of endometrial carcinoma

(2013) Gad Getz et al.   NATURE

Screening significantly hypermethylated genes in fetal tissues compared with maternal blood using a methylated-CpG island recovery assay-based microarray

(2012) Aihua Yin et al.   BMC Medical Genomics

Identification of an Epigenetic Profile Classifier That Is Associated with Survival in Head and Neck Cancer

(2012) G. M. Poage et al.   CANCER RESEARCH

Single-CpG-resolution methylome analysis identifies clinicopathologically aggressive CpG island methylator phenotype clear cell renal cell carcinomas

(2012) Eri Arai et al.   CARCINOGENESIS

The mechanisms of IDH mutations in tumorigenesis

(2012) Dan Ye et al.   CELL RESEARCH

Global Methylation Profiling for Risk Prediction of Prostate Cancer

(2012) S. Mahapatra et al.   CLINICAL CANCER RESEARCH

DNA methylation biomarkers and their utility for solid cancer diagnostics

(2012) Karen A. Heichman et al.   CLINICAL CHEMISTRY AND LABORATORY MEDICINE

Genome-wide DNA methylation profiles in hepatocellular carcinoma

(2012) Jing Shen et al.   HEPATOLOGY

The zinc finger transcription factor ZKSCAN3 promotes prostate cancer cell migration

(2012) Xingding Zhang et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Comprehensive molecular characterization of human colon and rectal cancer

(2012)   NATURE

Comprehensive molecular portraits of human breast tumours

(2012) Daniel C. Koboldt et al.   NATURE

Comprehensive genomic characterization of squamous cell lung cancers

(2012)   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

DNA methylation profiling in the clinic: applications and challenges

(2012) Holger Heyn et al.   NATURE REVIEWS GENETICS

Functions of DNA methylation: islands, start sites, gene bodies and beyond

(2012) Peter A. Jones   NATURE REVIEWS GENETICS

Analysing and interpreting DNA methylation data

(2012) Christoph Bock   NATURE REVIEWS GENETICS

Tissue of origin determines cancer-associated CpG island promoter hypermethylation patterns

(2012) Duncan Sproul et al.   GENOME BIOLOGY

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Genome-Wide DNA Methylation Profiling of CpG Islands in Breast Cancer Identifies Novel Genes Associated with Tumorigenicity

(2011) V. K. Hill et al.   CANCER RESEARCH

Comprehensive Genome Methylation Analysis in Bladder Cancer: Identification and Validation of Novel Methylated Genes and Application of These as Urinary Tumor Markers

(2011) T. Reinert et al.   CLINICAL CANCER RESEARCH

Integrated genomic analyses of ovarian carcinoma

(2011) D. Bell et al.   NATURE

Increased methylation variation in epigenetic domains across cancer types

(2011) Kasper Daniel Hansen et al.   NATURE GENETICS

Cancer epigenetics reaches mainstream oncology

(2011) Manuel Rodríguez-Paredes et al.   NATURE MEDICINE

ENCODE whole-genome data in the UCSC Genome Browser: update 2012

(2011) K. R. Rosenbloom et al.   NUCLEIC ACIDS RESEARCH

Low malignant potential tumors with micropapillary features are molecularly similar to low-grade serous carcinoma of the ovary

(2010) Taymaa May et al.   GYNECOLOGIC ONCOLOGY

Expression of transcription factors snail, slug, and twist in human bladder carcinoma

(2010) Qinchao Yu et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

Epigenetic modifications and human disease

(2010) Anna Portela et al.   NATURE BIOTECHNOLOGY

Tackling the widespread and critical impact of batch effects in high-throughput data

(2010) Jeffrey T. Leek et al.   NATURE REVIEWS GENETICS

MapSplice: Accurate mapping of RNA-seq reads for splice junction discovery

(2010) Kai Wang et al.   NUCLEIC ACIDS RESEARCH

Histone modification levels are predictive for gene expression

(2010) R. Karlic et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores

(2009) Rafael A Irizarry et al.   NATURE GENETICS

Linking DNA methylation and histone modification: patterns and paradigms

(2009) Howard Cedar et al.   NATURE REVIEWS GENETICS

Comprehensive genomic characterization defines human glioblastoma genes and core pathways

(2008) Roger McLendon et al.   NATURE