Prediction of genome-wide DNA methylation in repetitive elements

Activation of odorant receptor in colorectal cancer cells leads to inhibition of cell proliferation and apoptosis

(2017) Lea Weber et al.   PLoS One

The epigenetic landscape ofAlurepeats delineates the structural and functional genomic architecture of colon cancer cells

(2016) Mireia Jordà et al.   GENOME RESEARCH

Linking short tandem repeat polymorphisms with cytosine modifications in human lymphoblastoid cell lines

(2015) Zhou Zhang et al.   HUMAN GENETICS

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

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

TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data

(2015) Antonio Colaprico et al.   NUCLEIC ACIDS RESEARCH

Inter-locus as well as intra-locus heterogeneity in LINE-1 promoter methylation in common human cancers suggests selective demethylation pressure at specific CpGs

(2015) Nicole Nüsgen et al.   Clinical Epigenetics

Predicting genome-wide DNA methylation using methylation marks, genomic position, and DNA regulatory elements

(2015) Weiwei Zhang et al.   GENOME BIOLOGY

Understanding the relationship between DNA methylation and histone lysine methylation

(2014) Nathan R. Rose et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Gene Body Methylation Can Alter Gene Expression and Is a Therapeutic Target in Cancer

(2014) Xiaojing Yang et al.   CANCER CELL

Revved-up epigenetic sequencing may foster new diagnostics

(2014) Arielle Duhaime-Ross   NATURE MEDICINE

Semaphorin 3A upregulates FOXO 3a-dependent MelCAM expression leading to attenuation of breast tumor growth and angiogenesis

(2014) R Mishra et al.   ONCOGENE

LINE-1 Hypomethylation in Blood and Tissue Samples as an Epigenetic Marker for Cancer Risk: A Systematic Review and Meta-Analysis

(2014) Martina Barchitta et al.   PLoS One

Olfactory receptors in non-chemosensory tissues

(2013) NaNa Kang et al.   BMB Reports

Genome-Wide Variation of Cytosine Modifications Between European and African Populations and the Implications for Complex Traits

(2013) Erika L. Moen et al.   GENETICS

Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods

(2013) M. Stevens et al.   GENOME RESEARCH

Olfactory receptor 51E1 as a novel target for diagnosis in somatostatin receptor-negative lung carcinoids

(2013) Valeria Giandomenico et al.   JOURNAL OF MOLECULAR ENDOCRINOLOGY

RefSeq: an update on mammalian reference sequences

(2013) Kim D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

Evolutionary age of repetitive element subfamilies and sensitivity of DNA methylation to airborne pollutants

(2013) Hyang-Min Byun et al.   Particle and Fibre Toxicology

Comparison of Methods for Quantification of Global DNA Methylation in Human Cells and Tissues

(2013) Sofia Lisanti et al.   PLoS One

Long Interspersed Element–1 (LINE-1): Passenger or Driver in Human Neoplasms?

(2013) Nemanja Rodić et al.   PLoS Genetics

Is There a Link Between Genome-Wide Hypomethylation in Blood and Cancer Risk?

(2012) K. Brennan et al.   Cancer Prevention Research

Active human retrotransposons: variation and disease

(2012) Dustin C Hancks et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Different measures of “genome-wide” DNA methylation exhibit unique properties in placental and somatic tissues

(2012) E. Magda Price et al.   Epigenetics

Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies

(2012) Andrew E Jaffe et al.   INTERNATIONAL JOURNAL OF EPIDEMIOLOGY

Latent Regulatory Potential of Human-Specific Repetitive Elements

(2012) Michelle C. Ward et al.   MOLECULAR CELL

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

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

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

methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles

(2012) Altuna Akalin et al.   GENOME BIOLOGY

LINE-1 Elements in Structural Variation and Disease

(2011) Christine R. Beck et al.   Annual Review of Genomics and Human Genetics

pROC: an open-source package for R and S+ to analyze and compare ROC curves

(2011) Xavier Robin et al.   BMC BIOINFORMATICS

High density DNA methylation array with single CpG site resolution

(2011) Marina Bibikova et al.   GENOMICS

Increased methylation variation in epigenetic domains across cancer types

(2011) Kasper Daniel Hansen et al.   NATURE GENETICS

Silencing chromatin: comparing modes and mechanisms

(2011) Christian Beisel et al.   NATURE REVIEWS GENETICS

Genome-wide quantitative assessment of variation in DNA methylation patterns

(2011) Hehuang Xie et al.   NUCLEIC ACIDS RESEARCH

DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines

(2011) Jordana T Bell et al.   GENOME BIOLOGY

Improved measurement of LINE-1 sequence methylation for cancer detection

(2010) Tuangtong Pobsook et al.   CLINICA CHIMICA ACTA

Chromatin and sequence features that define the fine and gross structure of genomic methylation patterns

(2010) J. R. Edwards et al.   GENOME RESEARCH

The DNA Methylome of Human Peripheral Blood Mononuclear Cells

(2010) Yingrui Li et al.   PLOS BIOLOGY

Loss of epigenetic silencing in tumors preferentially affects primate-specific retroelements

(2009) Sebastian Szpakowski et al.   GENE

Mobile elements create structural variation: Analysis of a complete human genome

(2009) J. Xing et al.   GENOME RESEARCH

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

The impact of retrotransposons on human genome evolution

(2009) Richard Cordaux et al.   NATURE REVIEWS GENETICS

High-throughput sequence-based epigenomic analysis of Alu repeats in human cerebellum

(2009) Hehuang Xie et al.   NUCLEIC ACIDS RESEARCH

DNA hypomethylation in cancer cells

(2009) Melanie Ehrlich   Epigenomics

Many LINE1 elements contribute to the transcriptome of human somatic cells

(2009) Sanjida H Rangwala et al.   GENOME BIOLOGY

Histone methylation marks play important roles in predicting the methylation status of CpG islands

(2008) Shicai Fan et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

LINE-1 methylation patterns of different loci in normal and cancerous cells

(2008) Chureerat Phokaew et al.   NUCLEIC ACIDS RESEARCH