5-Hydroxymethylcytosine signatures in circulating cell-free DNA as diagnostic and predictive biomarkers for coronary artery disease

Genome-wide mapping of 5-hydroxymethylcytosines in circulating cell-free DNA as a non-invasive approach for early detection of hepatocellular carcinoma

(2019) Jiabin Cai et al.   GUT

Circulating tumor DNA 5-hydroxymethylcytosine as a novel diagnostic biomarker for esophageal cancer

(2018) Xin Tian et al.   CELL RESEARCH

TET2: A Novel Epigenetic Regulator and Potential Intervention Target for Atherosclerosis

(2018) Yami Liu et al.   DNA AND CELL BIOLOGY

Tet2 promotes pathogen infection-induced myelopoiesis through mRNA oxidation

(2018) Qicong Shen et al.   NATURE

Non-invasive detection of human cardiomyocyte death using methylation patterns of circulating DNA

(2018) Hai Zemmour et al.   Nature Communications

5-Hydroxymethylome in Circulating Cell-free DNA as A Potential Biomarker for Non-small-cell Lung Cancer

(2018) Ji Zhang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Epigenetic Modifications in Cardiovascular Aging and Diseases

(2018) Weiqi Zhang et al.   CIRCULATION RESEARCH

Pseudogenes as Functionally Significant Elements of the Genome

(2018) T. F. Kovalenko et al.   BIOCHEMISTRY-MOSCOW

Comprehensive human cell-type methylation atlas reveals origins of circulating cell-free DNA in health and disease

(2018) Joshua Moss et al.   Nature Communications

Clonal hematopoiesis associated with TET2 deficiency accelerates atherosclerosis development in mice

(2017) José J. Fuster et al.   SCIENCE

TET2 Protects against oxLDL-Induced HUVEC Dysfunction by Upregulating the CSE/H2S System

(2017) Juan Peng et al.   Frontiers in Pharmacology

Effect of diabetes status and hyperglycemia on global DNA methylation and hydroxymethylation

(2017) Jairo Arturo Pinzón-Cortés et al.   Endocrine Connections

The dark side of circulating nucleic acids

(2016) Silvia Gravina et al.   AGING CELL

DNA hydroxymethylation controls cardiomyocyte gene expression in development and hypertrophy

(2016) Carolina M. Greco et al.   Nature Communications

Loss of 5-hydroxymethylcytosine is linked to gene body hypermethylation in kidney cancer

(2015) Ke Chen et al.   CELL RESEARCH

9p21.3 Coronary Artery Disease Risk Variants Disrupt TEAD Transcription Factor–Dependent Transforming Growth Factor β Regulation of p16 Expression in Human Aortic Smooth Muscle CellsCLINICAL PERSPECTIVE

(2015) Naif A. M. Almontashiri et al.   CIRCULATION

SOX9 modulates the expression of key transcription factors required for heart valve development

(2015) V. C. Garside et al.   DEVELOPMENT

Altering 5-hydroxymethylcytosine modification impacts ischemic brain injury

(2015) Zhigang Miao et al.   HUMAN MOLECULAR GENETICS

Global, regional, and national age–sex specific all-cause and cause-specific mortality for 240 causes of death, 1990–2013: a systematic analysis for the Global Burden of Disease Study 2013

(2015)   LANCET

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

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

5-hydroxymethylcytosine in cancer: significance in diagnosis and therapy

(2015) Aparna Vasanthakumar et al.   Cancer Genetics

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

From development to diseases: The role of 5hmC in brain

(2014) Wenjia Sun et al.   GENOMICS

2014 AHA/ACC Guideline for the Management of Patients With Non–ST-Elevation Acute Coronary Syndromes

(2014) Ezra A. Amsterdam et al.   JOURNAL OF THE AMERICAN COLLEGE OF CARDIOLOGY

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Ten-Eleven Translocation-2 (TET2) Is a Master Regulator of Smooth Muscle Cell Plasticity

(2013) Renjing Liu et al.   CIRCULATION

Myocardial Biomarkers for Prediction of Cardiovascular Disease

(2013) Johan Sundström   DISEASE MARKERS

Liquid biopsy: monitoring cancer-genetics in the blood

(2013) Emily Crowley et al.   Nature Reviews Clinical Oncology

Global changes in DNA methylation and hydroxymethylation in Alzheimer's disease human brain

(2013) Natacha Coppieters et al.   NEUROBIOLOGY OF AGING

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Loss of 5-Hydroxymethylcytosine Is an Epigenetic Hallmark of Melanoma

(2012) Christine Guo Lian et al.   CELL

Base-Resolution Analysis of 5-Hydroxymethylcytosine in the Mammalian Genome

(2012) Miao Yu et al.   CELL

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine

(2010) Chun-Xiao Song et al.   NATURE BIOTECHNOLOGY

Low Diagnostic Yield of Elective Coronary Angiography

(2010) Manesh R. Patel et al.   NEW ENGLAND JOURNAL OF MEDICINE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Cardiac troponin may be released by ischemia alone, without necrosis

(2009) Peter E. Hickman et al.   CLINICA CHIMICA ACTA

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Differential regulation of mRNA stability controls the transient expression of genes encoding Drosophila antimicrobial peptide with distinct immune response characteristics

(2009) Youheng Wei et al.   NUCLEIC ACIDS RESEARCH

Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes

(2008) Oliver H. Tam et al.   NATURE

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY