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Genome-wide profiling of the functional DNA methylation landscape at base-pair resolution in human cancer types [BS-seq]

ABSTRACT: Whole genome bisulphite sequencing of 13 human cancer samples and 9 normal controls. The main goal is to find the Diffrenetial methylated regions (DMR) at Genome wide level in different tissues and cancer types

ORGANISM(S): Homo sapiens

PROVIDER: GSE52271 | GEO | 2016/01/08

REPOSITORIES: GEO

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Genome-wide profiling of the functional DNA methylation landscape at base-pair resolution in human cancer types [BS-seq]

Project description:Whole genome bisulphite sequencing of 13 human cancer samples and 9 normal controls. The main goal is to find the Diffrenetial methylated regions (DMR) at Genome wide level in different tissues and cancer types Sequencing of bisulfite converted DNA human cancer samples and normal control tissue types.

2016-01-08 | E-GEOD-52271 | biostudies-arrayexpress

Genome-wide profiling of the DNA methylation landscape at base-pair resolution in human acute myeloid leukemia cell lines.

Project description:Whole genome bisulphite sequencing of 2 human cancer cell line samples. One cell line harbours a heterozygous mutation in the DNA methyl-transferase DNMT3a, a common alteration observed in AML patients. The main goal is to find the differentially methylated regions (DMR) at genome-wide level between the mutant and a wild-type cell lines to elucidate the effect of the mutation and the implication in leukomogenesis.

2015-10-07 | GSE62300 | GEO

Genome-wide profiling of the DNA methylation landscape at base-pair resolution in human neurological disorders (Bisulfite-Seq)

Project description:Whole genome bisulphite sequencing of 4 human neurological disorders.

2016-01-22 | GSE57359 | GEO

Epigenetic alterations of a DNMT3B-mutant ICF patient at base-pair resolution

Project description:The immunodeficiency, centromere instability and facial anomalies (ICF) syndrome is associated with mutation of the DNA methyl-transferase DNMT3B, resulting in a reduction of enzyme activity. Aberrant expression of immune system genes and hypomethylation of pericentromeric regions accompanied by chromosomal instability were determined as alterations driving the disease phenotype. However, so far only technologies capable of analyzing single loci were applied to determine epigenetic alterations in ICF patients. In the current study, we performed whole-genome bisulphite sequencing to assess alteration in DNA methylation at base-pair resolution. Whole-genome bisulphite sequencing was performed to assess alteration in DNA methylation of one ICF patient and one healthy control sample at base-pair resolution.

2012-04-25 | E-GEOD-37578 | biostudies-arrayexpress

Genome-wide profiling of the functional DNA methylation landscape at base-pair resolution in human cancer types [Methylation BeadChip]

Project description:High-resolution DNA methylation array analysis of human cancer samples and normal control tissue types Analisys of Differential Methylation Regions (DMRs) of human cancer samples and normal control tissue types performing high-resolution DNA methylation array analysis

2016-01-08 | E-GEOD-52270 | biostudies-arrayexpress

Epigenetic alterations of a DNMT3B-mutant ICF patient at base-pair resolution

2012-04-26 | GSE37578 | GEO

Genome-wide profiling of the functional DNA methylation landscape at base-pair resolution in human cancer types

Project description:High-resolution DNA methylation array analysis of human cancer samples and normal control tissue types.

2017-06-07 | GSE76269 | GEO

Genome-wide profiling of the functional DNA methylation landscape at base-pair resolution in human cancer types

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-01-08 | E-GEOD-52272 | biostudies-arrayexpress

Genome-wide profiling of the functional DNA methylation landscape at base-pair resolution in human cancer types [Methylation BeadChip]

Project description:High-resolution DNA methylation array analysis of human cancer samples and normal control tissue types

2016-01-08 | GSE52270 | GEO

Epigenome characterization at single base-pair resolution

Project description:We have combined standard micrococcal (MNase) digestion of nuclei with a modified protocol for construction paired-end DNA sequencing libraries to map both nucleosomes and subnucleosome-sized particles at single base-pair resolution throughout the budding yeast genome. We found that partially unwrapped nucleosomes and subnucleosome-sized particles can occupy the same position within a cell population, suggesting dynamic behavior. By varying the time of MNase digestion, we have been able to observe changes that reflect differential sensitivity of particles, including eviction of nucleosomes. Our protocol and mapping method provide a general strategy for characterizing full epigenomes. We used micrococcal nuclease mapping, chromatin immunoprecipitation and paired-end sequencing to determine the structure of yeast centromeres at single base-pair resolution.

2011-10-26 | E-GEOD-30551 | biostudies-arrayexpress

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