DNA demethylation by 5-aza-2′-deoxycytidine is imprinted, targeted to euchromatin, and has limited transcriptional consequences

On the presence and role of human gene-body DNA methylation

(2015) Daudi Jjingo et al.   Oncotarget

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

(2014) Xiaojing Yang et al.   CANCER CELL

Genomic impact of transient low-dose decitabine treatment on primary AML cells

(2013) J. M. Klco et al.   BLOOD

Intragenic DNA methylation modulates alternative splicing by recruiting MeCP2 to promote exon recognition

(2013) Alika K Maunakea et al.   CELL RESEARCH

Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects

(2013) J. M. Simon et al.   GENOME RESEARCH

Functional DNA demethylation is accompanied by chromatin accessibility

(2013) Kurinji Pandiyan et al.   NUCLEIC ACIDS RESEARCH

Stem cell origin of myelodysplastic syndromes

(2013) H K Elias et al.   ONCOGENE

Stem and progenitor cells in myelodysplastic syndromes show aberrant stage-specific expansion and harbor genetic and epigenetic alterations

(2012) B. Will et al.   BLOOD

DNA methyltransferase inhibitors in cancer: a chemical and therapeutic patent overview and selected clinical studies

(2012) Jacques Fahy et al.   EXPERT OPINION ON THERAPEUTIC PATENTS

The Wasp System: An open source environment for managing and analyzing genomic data

(2012) Andrew S. McLellan et al.   GENOMICS

5-Aza-2′-deoxycytidine-induced genome rearrangements are mediated by DNMT1

(2012) A Y Maslov et al.   ONCOGENE

Late-replicating heterochromatin is characterized by decreased cytosine methylation in the human genome

(2011) M. Suzuki et al.   GENOME RESEARCH

Epigenetic cancer therapy: Proof of concept and remaining challenges

(2010) Cora Mund et al.   BIOESSAYS

Fast and SNP-tolerant detection of complex variants and splicing in short reads

(2010) T. D. Wu et al.   BIOINFORMATICS

Conserved role of intragenic DNA methylation in regulating alternative promoters

(2010) Alika K. Maunakea et al.   NATURE

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Optimized design and data analysis of tag-based cytosine methylation assays

(2010) Masako Suzuki et al.   GENOME BIOLOGY

MDS and secondary AML display unique patterns and abundance of aberrant DNA methylation

(2009) M. E. Figueroa et al.   BLOOD

Inhibition of Histone Deacetylases: A Pharmacological Approach to the Treatment of Non-Cancer Disorders

(2009) Norbert Wiech et al.   CURRENT TOPICS IN MEDICINAL CHEMISTRY

Transcriptome analysis by strand-specific sequencing of complementary DNA

(2009) Dmitri Parkhomchuk et al.   NUCLEIC ACIDS RESEARCH

Mechanisms of resistance to 5-aza-2'-deoxycytidine in human cancer cell lines

(2008) T. Qin et al.   BLOOD

Genome-Wide Transcriptional Response to 5-Aza-2'-Deoxycytidine and Trichostatin A in Multiple Myeloma Cells

(2008) G. Heller et al.   CANCER RESEARCH

Subtypes of Breast Cancer Show Preferential Site of Relapse

(2008) M. Smid et al.   CANCER RESEARCH

An embryonic stem cell–like gene expression signature in poorly differentiated aggressive human tumors

(2008) Ittai Ben-Porath et al.   NATURE GENETICS

Prediction of future metastasis and molecular characterization of head and neck squamous-cell carcinoma based on transcriptome and genome analysis by microarrays

(2008) D S Rickman et al.   ONCOGENE

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY