Basic Information

Dataset GSE66478
Status 2015-03-04
Species Homo sapiens
Source NCBI GEO
Subcellular Localization chromatin pellet extract (CPE)|soluble nuclear extract (SNE)
PMID 26257179
Title Biochemical fractionation of HEK293 nuclei and RNA-seq of chromatin-associated and soluble-nuclear RNA
Citation Werner MS, Ruthenburg AJ. Nuclear Fractionation Reveals Thousands of Chromatin-Tethered Noncoding RNAs Adjacent to Active Genes. Cell Rep 2015 Aug 18;12(7):1089-98.
Experimental Design Nuclei from three biological replicates were isolated by detergent lysis, fractionated, then three chromatin and three soluble RNA samples were converted to cDNA using Illumina TruSeq stranded protocol, and sequenced on Illumina HiSeq2000

Sample Information

BioProject Sample Name Localization Treatment Source Label
PRJNA277042 GSM1623140 soluble nuclear extract (SNE) None HEK293 SNE 1
PRJNA277042 GSM1623141 soluble nuclear extract (SNE) None HEK293 SNE 2
PRJNA277042 GSM1623142 soluble nuclear extract (SNE) None HEK293 SNE 3
PRJNA277042 GSM1623143 chromatin pellet extract (CPE) None HEK293 CPE 1
PRJNA277042 GSM1623144 chromatin pellet extract (CPE) None HEK293 CPE 2
PRJNA277042 GSM1623145 chromatin pellet extract (CPE) None HEK293 CPE 3
PRJNA277042 GSM1623146 chromatin pellet extract (CPE) plus DRB HEK293 CPE + DRB, 1
PRJNA277042 GSM1623147 chromatin pellet extract (CPE) plus DRB HEK293 CPE + DRB, 2
PRJNA277042 GSM1623148 chromatin pellet extract (CPE) mock HEK293 CPE Mock, 1
PRJNA277042 GSM1623149 chromatin pellet extract (CPE) mock HEK293 CPE Mock, 2

Subcellular Localization Number

Note
RNA Type:
Condition:

Localization Differential Analysis

Note
RNA Type:
Localization:
Condition:
Method:
Enrichment:

Specific Subcellular Localization

Note
RNA Type:
Method:

Dynamic RNA Localization

Note
RNA Type:
Method:

Specific Enrichment Analysis

Note
RNA Type:
Localization:
Condition:
Method:
Enrichment:

Specific RNA Ratio

Note
RNA Type:
RNA Symbol:
TPM: