A combined epigenome- and transcriptome-wide association study of the oral masticatory mucosa assigns CYP1B1 a central role for epithelial health in smokers

Global methylation profiles in buccal cells of long-term smokers and moist snuff consumers

(2018) Walter J. Jessen et al.   BIOMARKERS

A novel cell-type deconvolution algorithm reveals substantial contamination by immune cells in saliva, buccal and cervix

(2018) Shijie C Zheng et al.   Epigenomics

Smoking induces coordinated DNA methylation and gene expression changes in adipose tissue with consequences for metabolic health

(2018) Pei-Chien Tsai et al.   Clinical Epigenetics

Epigenome-wide analysis of DNA methylation in lung tissue shows concordance with blood studies and identifies tobacco smoke-inducible enhancers

(2017) Theresa Ryan Stueve et al.   HUMAN MOLECULAR GENETICS

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

Cytochrome P450 1B1 inhibition suppresses tumorigenicity of prostate cancer via caspase-1 activation

(2017) Inik Chang et al.   Oncotarget

BatchQC: interactive software for evaluating sample and batch effects in genomic data

(2016) Solaiappan Manimaran et al.   BIOINFORMATICS

Tobacco smoking-associated genome-wide DNA methylation changes in the EPIC study

(2016) Srikant Ambatipudi et al.   Epigenomics

Overexpression long non-coding RNA LINC00673 is associated with poor prognosis and promotes invasion and metastasis in tongue squamous cell carcinoma

(2016) Jianjun Yu et al.   Oncotarget

Maternal Smoking during Pregnancy and DNA-Methylation in Children at Age 5.5 Years: Epigenome-Wide-Analysis in the European Childhood Obesity Project (CHOP)-Study

(2016) Peter Rzehak et al.   PLoS One

Smoking-Associated Site-Specific Differential Methylation in Buccal Mucosa in the COPDGene Study

(2015) Emily S. Wan et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Identification of a new locus and validation of previously reported loci showing differential methylation associated with smoking. The REGICOR study

(2015) Sergi Sayols-Baixeras et al.   Epigenetics

Dynamics of smoking-induced genome-wide methylation changes with time since smoking cessation

(2015) Florence Guida et al.   HUMAN MOLECULAR GENETICS

DNA methylation changes of whole blood cells in response to active smoking exposure in adults: a systematic review of DNA methylation studies

(2015) Xu Gao et al.   Clinical Epigenetics

The Molecular Signatures Database Hallmark Gene Set Collection

(2015) Arthur Liberzon et al.   Cell Systems

Correlation of Smoking-Associated DNA Methylation Changes in Buccal Cells With DNA Methylation Changes in Epithelial Cancer

(2015) Andrew E. Teschendorff et al.   JAMA Oncology

Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays

(2014) Martin J. Aryee et al.   BIOINFORMATICS

Cigarette smoking reduces DNA methylation levels at multiple genomic loci but the effect is partially reversible upon cessation

(2014) Loukia G Tsaprouni et al.   Epigenetics

Epigenomic association analysis identifies smoking-related DNA methylation sites in African Americans

(2013) Yan V. Sun et al.   HUMAN GENETICS

Cigarette smoking induces small airway epithelial epigenetic changes with corresponding modulation of gene expression

(2013) Lauren J. Buro-Auriemma et al.   HUMAN MOLECULAR GENETICS

The Cancer Genome Atlas Pan-Cancer analysis project

(2013) John N Weinstein et al.   NATURE GENETICS

50-Year Trends in Smoking-Related Mortality in the United States

(2013) Michael J. Thun et al.   NEW ENGLAND JOURNAL OF MEDICINE

Tobacco Smoking Leads to Extensive Genome-Wide Changes in DNA Methylation

(2013) Sonja Zeilinger et al.   PLoS One

Joint and Independent Effects of Alcohol Drinking and Tobacco Smoking on Oral Cancer: A Large Case-Control Study

(2013) José Leopoldo Ferreira Antunes et al.   PLoS One

Smoke carcinogens cause bone loss through the aryl hydrocarbon receptor and induction of Cyp1 enzymes

(2013) J. Iqbal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coordinated changes in AHRR methylation in lymphoblasts and pulmonary macrophages from smokers

(2012) Martha M. Monick et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART B-NEUROPSYCHIATRIC GENETICS

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

450K Epigenome-Wide Scan Identifies Differential DNA Methylation in Newborns Related to Maternal Smoking during Pregnancy

(2012) Bonnie R. Joubert et al.   ENVIRONMENTAL HEALTH PERSPECTIVES

Demethylation of the aryl hydrocarbon receptor repressor as a biomarker for nascent smokers

(2012) Robert A. Philibert et al.   Epigenetics

Epigenome-wide association study in the European Prospective Investigation into Cancer and Nutrition (EPIC-Turin) identifies novel genetic loci associated with smoking

(2012) Natalie S. Shenker et al.   HUMAN MOLECULAR GENETICS

Tobacco-Smoking-Related Differential DNA Methylation: 27K Discovery and Replication

(2011) Lutz P. Breitling et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Expression Profiling of CYP1B1 in Oral Squamous Cell Carcinoma: Counterintuitive Downregulation in Tumors

(2011) Shalmali Pradhan et al.   PLoS One

Genome-Wide Meta-Analysis Identifies Regions on 7p21 (AHR) and 15q24 (CYP1A2) As Determinants of Habitual Caffeine Consumption

(2011) Marilyn C. Cornelis et al.   PLoS Genetics

Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis

(2010) Pan Du et al.   BMC BIOINFORMATICS

Epigenetic modifications and human disease

(2010) Anna Portela et al.   NATURE BIOTECHNOLOGY

GAGE: generally applicable gene set enrichment for pathway analysis

(2009) Weijun Luo et al.   BMC BIOINFORMATICS