Genome-wide methylation and expression analyses reveal the epigenetic landscape of immune-related diseases for tobacco smoking

Genome-wide DNA methylation analysis reveals significant impact of long-term ambient air pollution exposure on biological functions related to mitochondria and immune response

(2020) Maiqiu Wang et al.   ENVIRONMENTAL POLLUTION

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets

(2019) Yingyao Zhou et al.   Nature Communications

The effects of smoking on vascular endothelial growth factor and inflammation markers: A case-control study

(2018) Merve Guzeldulger Ugur et al.   Clinical Respiratory Journal

Identification of Smoking-Associated Differentially Methylated Regions Using Reduced Representation Bisulfite Sequencing and Cell type–Specific Enhancer Activation and Gene Expression

(2018) Ma Wan et al.   ENVIRONMENTAL HEALTH PERSPECTIVES

Association and cis-mQTL analysis of variants in CHRNA3-A5, CHRNA7, CHRNB2, and CHRNB4 in relation to nicotine dependence in a Chinese Han population

(2018) Qiang Liu et al.   Translational Psychiatry

Global cancer statistics 2018: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries

(2018) Freddie Bray et al.   CA-A CANCER JOURNAL FOR CLINICIANS

Nicotine promotes vascular endothelial growth factor secretion by human trophoblast cells under hypoxic conditions and improves the proliferation and tube formation capacity of human umbilical endothelial cells

(2017) Hongbo Zhao et al.   REPRODUCTIVE BIOMEDICINE ONLINE

AHRR (cg05575921) hypomethylation marks smoking behaviour, morbidity and mortality

(2017) Stig E Bojesen et al.   THORAX

Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis

(2017) Sayed Mohammad Ebrahim Sahraeian et al.   Nature Communications

GeneHancer: genome-wide integration of enhancers and target genes in GeneCards

(2017) Simon Fishilevich et al.   Database-The Journal of Biological Databases and Curation

Establishment of a Strong Link Between Smoking and Cancer Pathogenesis through DNA Methylation Analysis

(2017) Yunlong Ma et al.   Scientific Reports

Prevalence of Cigarette Smoking and Nicotine Dependence in Men and Women Residing in Two Provinces in China

(2017) Yunlong Ma et al.   Frontiers in Psychiatry

Genome-wide identification of inter-individually variable DNA methylation sites improves the efficacy of epigenetic association studies

(2017) Tsuyoshi Hachiya et al.   npj Genomic Medicine

Genome-Wide Analysis of DNA Methylation and Cigarette Smoking in a Chinese Population

(2016) Xiaoyan Zhu et al.   ENVIRONMENTAL HEALTH PERSPECTIVES

Environment-induced epigenetic reprogramming in genomic regulatory elements in smoking mothers and their children

(2016) T. Bauer et al.   Molecular Systems Biology

Smoking-associated DNA methylation markers predict lung cancer incidence

(2016) Yan Zhang et al.   Clinical Epigenetics

DNA Methylation of the Aryl Hydrocarbon Receptor Repressor Associations With Cigarette Smoking and Subclinical AtherosclerosisCLINICAL PERSPECTIVE

(2015) Lindsay M. Reynolds et al.   Circulation-Cardiovascular Genetics

Smoking-Associated DNA Methylation Biomarkers and Their Predictive Value for All-Cause and Cardiovascular Mortality

(2015) Yan Zhang et al.   ENVIRONMENTAL HEALTH PERSPECTIVES

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

(2015) Florence Guida et al.   HUMAN MOLECULAR GENETICS

F2RL3methylation, lung cancer incidence and mortality

(2015) Yan Zhang et al.   INTERNATIONAL JOURNAL OF CANCER

Therapeutic antibodies reveal Notch control of transdifferentiation in the adult lung

(2015) Daniel Lafkas et al.   NATURE

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Hypomethylation of smoking-related genes is associated with future lung cancer in four prospective cohorts

(2015) Francesca Fasanelli et al.   Nature Communications

DNA Methylation of the Aryl Hydrocarbon Receptor Repressor Associations With Cigarette Smoking and Subclinical AtherosclerosisCLINICAL PERSPECTIVE

(2015) Lindsay M. Reynolds et al.   Circulation-Cardiovascular Genetics

A varying T cell subtype explains apparent tobacco smoking induced single CpG hypomethylation in whole blood

(2015) Mario Bauer et al.   Clinical Epigenetics

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

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

F2RL3 Methylation as a Biomarker of Current and Lifetime Smoking Exposures

(2013) Yan Zhang et al.   ENVIRONMENTAL HEALTH PERSPECTIVES

Smoke-related DNA methylation changes in the etiology of human disease

(2013) Welisane Besingi et al.   HUMAN MOLECULAR GENETICS

CS1 (SLAMF7) inhibits production of proinflammatory cytokines by activated monocytes

(2013) Jong R. Kim et al.   INFLAMMATION RESEARCH

Extensive Variation in Chromatin States Across Humans

(2013) M. Kasowski et al.   SCIENCE

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

Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values

(2012) B. S. Pedersen et al.   BIOINFORMATICS

DNA methylation arrays as surrogate measures of cell mixture distribution

(2012) Eugene Houseman et al.   BMC BIOINFORMATICS

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

(2012) Robert A. Philibert et al.   Epigenetics

Smoking, F2RL3 methylation, and prognosis in stable coronary heart disease

(2012) Lutz Philipp Breitling et al.   EUROPEAN HEART JOURNAL

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions

(2012) Kasper D Hansen et al.   GENOME BIOLOGY

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

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

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

(2011) Felix Krueger et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Dynamic changes in the human methylome during differentiation

(2010) L. Laurent et al.   GENOME RESEARCH

miR-200 Inhibits Lung Adenocarcinoma Cell Invasion and Metastasis by Targeting Flt1/VEGFR1

(2010) J. D. Roybal et al.   MOLECULAR CANCER RESEARCH

Generalizing Moving Averages for Tiling Arrays Using Combined P-Value Statistics

(2010) Katerina J Kechris et al.   Statistical Applications in Genetics and Molecular Biology

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells

(2009) Madeleine P Ball et al.   NATURE BIOTECHNOLOGY

A human B cell methylome at 100−base pair resolution

(2009) Tibor A. Rauch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA methylation landscapes: provocative insights from epigenomics

(2008) Miho M. Suzuki et al.   NATURE REVIEWS GENETICS