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Epigenomic Analysis of Multilineage Differentiation of Human Embryonic Stem Cells

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Regional Activation of the Cancer Genome by Long-Range Epigenetic Remodeling

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(2012) Chao Huang et al.   Nature Protocols

Prognostic Relevance of Integrated Genetic Profiling in Acute Myeloid Leukemia

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Quantitative Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base Resolution

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

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TheDrosophilaGene Disruption Project: Progress Using Transposons With Distinctive Site Specificities

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Directional DNA Methylation Changes and Complex Intermediate States Accompany Lineage Specificity in the Adult Hematopoietic Compartment

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Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells

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Dnmt3a is essential for hematopoietic stem cell differentiation

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Exome sequencing identifies somatic mutations of DNA methyltransferase gene DNMT3A in acute monocytic leukemia

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Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling

(2011) Hongcang Gu et al.   Nature Protocols

Replication-Dependent Loss of 5-Hydroxymethylcytosine in Mouse Preimplantation Embryos

(2011) A. Inoue et al.   SCIENCE

Tet-Mediated Formation of 5-Carboxylcytosine and Its Excision by TDG in Mammalian DNA

(2011) Y.-F. He et al.   SCIENCE

Genomic Distribution and Inter-Sample Variation of Non-CpG Methylation across Human Cell Types

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Combinatorial Transcriptional Control In Blood Stem/Progenitor Cells: Genome-wide Analysis of Ten Major Transcriptional Regulators

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Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2

(2010) Myunggon Ko et al.   NATURE

DNMT3AMutations in Acute Myeloid Leukemia

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SOAP2: an improved ultrafast tool for short read alignment

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edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

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Genetic characterization of TET1, TET2, and TET3 alterations in myeloid malignancies

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BSMAP: whole genome bisulfite sequence MAPping program

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Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores

(2009) Rafael A Irizarry et al.   NATURE GENETICS

Mutation inTET2in Myeloid Cancers

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Transcriptional features of genomic regulatory blocks

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Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package 'annotationTools'

(2008) Alexandre Kuhn et al.   BMC BIOINFORMATICS

A rapid micro chromatin immunoprecipitation assay (ChIP)

(2008) John Arne Dahl et al.   Nature Protocols

Promoter elements associated with RNA Pol II stalling in the Drosophila embryo

(2008) D. A. Hendrix et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY