Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Correlation between DNase I hypersensitive site distribution and gene expression in HeLa S3 cells

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Homo sapiens

PROVIDER: GSE38915 | GEO | 2015/06/19

SECONDARY ACCESSION(S): PRJNA169323

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Correlation between DNase I hypersensitive site distribution and gene expression in HeLa S3 cells.

Project description: Not available

| S-EPMC3416863 | biostudies-literature

Correlation between DNase I hypersensitive site distribution and gene expression in HeLa S3 cells [DNase-Hypersensitivity]

Project description:Mapping DNase I hypersensitive sites (DHSs) within nuclear chromatin is a traditional and powerful method of identifying genetic regulatory elements. DHSs have been mapped by capturing the ends of long DNase I-cut fragments (>100,000 bp), or 100-1200 bp DNase I-double cleavage fragments (also called double-hit fragments). But next generation sequencing requires a DNA library containing DNA fragments of 100-500bp. Therefore, we have modified the double-hit method and use short DNA fragments to generate DNA libraries for next generation sequencing. We call this method Short DHS Assay (Short DNAse I Hypersensitive Site assay). The short segments are 100-300bp and can be directly cloned and used for high-throughput sequencing. We identified 83,897 DHSs in 2,343,479 tags across the human genome. Our results indicate that the DHSs identified by the Short DHS assay are consistent with those identified by longer fragments in previous studies.

2015-06-19 | GSE38914 | GEO

Correlation between DNase I hypersensitive site distribution and gene expression in HeLa S3 cells [Illumina arrays]

Project description:We explored the relationship between the distribution of DNase I hypersensitive site(DHSs) and levels of gene expression. Expression values from 5 to 11 are raw log2 ratio-transformed data from gene expression arrays. We found that the distribution of DHSs in promoter region and CpG islands is positively correlated with gene expression levels and 3’UTR DHSs are negatively correlated with active expression of genes. Total RNA obtained from HeLa S3 cells.

2015-06-19 | E-GEOD-38913 | biostudies-arrayexpress

Correlation between DNase I hypersensitive site distribution and gene expression in HeLa S3 cells [Illumina arrays]

2015-06-19 | GSE38913 | GEO

DNase-seq from HeLa-S3 (ENCSR959ZXU)

Project description:For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2016-12-07 | GSE90432 | GEO

Mi2beta shows chromatin enzyme specificity by erasing a DNase I-hypersensitive site established by ACF.

Project description: Not available

| S-EPMC2658048 | biostudies-literature

Mechanism of DNase I hypersensitive site formation within the human globin locus control region.

Project description: Not available

| S-EPMC48402 | biostudies-other

DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays.

Project description: Not available

| S-EPMC2698431 | biostudies-literature

Chromatin fine structure of the c-MYC insulator element/DNase I-hypersensitive site I is not preserved during mitosis.

Project description: Not available