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
RNA Type:
Condition:
Localization Differential Analysis
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Method:
Enrichment:
Specific Subcellular Localization
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Method:
Dynamic RNA Localization
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Method:
Specific Enrichment Analysis
RNA Type:
Localization:
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Method:
Enrichment:
Specific RNA Ratio
RNA Type:
RNA Symbol:
TPM:
