Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Defining genome architecture at base-pair resolution

ABSTRACT: Defining genome architecture at base-pair resolution

PROVIDER: PRJNA603386 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12625600_1.fastq.gz	Fastqsanger.gz
	SRR12625600_2.fastq.gz	Fastqsanger.gz
	SRR12625601_1.fastq.gz	Fastqsanger.gz
	SRR12625601_2.fastq.gz	Fastqsanger.gz
	SRR12625602_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 209

Similar Datasets

Defining genome architecture at base-pair resolution

Project description:By using a novel chromatin conformation capture (3C) method (Micro Capture-C (MCC)), which allows physical contacts to be determined at base-pair resolution. We demonstrate interactions between different classes of regulatory elements in unprecedented detail. T119_S12-S17 and E14_S10-S14 contains data of viewpoint from enhancers that are active in both ES and erythroid cells. NIPBL, CTCF and Rad21 CHIP libraries were prepared and analyzed as previously reported in Hanssen LLP. et al., 2017.

2021-04-16 | GSE144336 | GEO

Genome architecture in definitive erythroid cells at base-pair resolution

Project description:Genome architecture in definitive erythroid cells at base-pair resolution

| PRJNA641874 | ENA

Genome architecture in definitive erythroid cells at base-pair resolution

2021-04-16 | GSE153256 | 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

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

Epigenome characterization at single base-pair resolution

2011-10-27 | GSE30551 | GEO

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

2012-04-26 | GSE37578 | GEO

Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in Acute Myeloid Leukemia

2012-06-01 | GSE37454 | GEO

Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in Acute Myeloid Leukemia

Project description:Here we used Illumina NGS for high-throughput profiling of the DNA methylome in two human colon cancer derived cell lines, two human normal bone marrow CD34+ controls and in five human Acutre Myeloid Leukeima patient samples. These data can be used to determine the CpG cytosine methylation pattern at base pair resolution in each sample and to determine differentially methylated cytosines and regions between samples Reduced Representation Bisulfite Sequencing (RRBS) and Extended Reduced Representation Bisulfite Sequencing (ERRBS) on genomic DNA. We used colon cancer cell lines (two) to establish reproducbility and range of assay sensitivity. We used Acute Myeloid Leukemia patient samples and CD34+ bone marrow cells as controls to determine the methylome pattern in the patient samples

2012-06-01 | E-GEOD-37454 | biostudies-arrayexpress

Tri-4C: efficient and quantitative analysis of enhancer loops at hundred base pair resolution

Project description:Tri-4C: efficient and quantitative analysis of enhancer loops at hundred base pair resolution

| PRJNA488419 | ENA