Experiment summary for ENCSR516IVY
doi:10.17989/ENCSR516IVY
Summary
- Status
- released
- Assay
- ChIP-seq (TF ChIP-seq)
- Target
- NR3C1
- Biosample summary
- Homo sapiens A549
- Biosample Type
- cell line
- Replication type
- isogenic
- Description
- NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
- Nucleic acid type
- DNA
- Library starting quantity
- 7ng
- Size range
- >200
- Fragmentation methods
- sonication (Bioruptor Twin)
- Size selection method
- dual SPRI
- Platform
- Illumina HiSeq 2500, Illumina HiSeq 2000
- Controls
Attribution
Genomics of Gene Regulation Project
- Lab
- Tim Reddy, Duke
- Award
- U01HG007900 (Tim Reddy, Duke)
- Project
- GGR
- External resources
- Aliases
- tim-reddy:GR.t00
- Date submitted
- May 30, 2016
- Date released
- July 21, 2016
- Treatment Time Series
- ENCSR210PYP
- Submitter comment
- NR3C1 (GR) is sequestered in the cytosol when it is unbound by a ligand. In the presence of DEX that ligates to GR, the activated GR complex up-regulates the expression of anti-inflammatory proteins in the nucleus or represses the expression of pro-inflammatory proteins in the cytosol. Time point 0 of the current timecourse data represents samples before exposure to DEX and therefore no peaks are expected from the ChIP-seq experiments. ENCODE4 pipeline run failed at chip.idr step.
- Factorbook
Encyclopedia Integration
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Antibody | Library |
|---|---|---|---|---|---|
| 2 | 1 | Homo sapiens A549 cell line | ENCBS235ANB | ENCAB725CEF | ENCLB292KAS |
| 3 | 1 | Homo sapiens A549 cell line | ENCBS876CAE | ENCAB725CEF | ENCLB904WJY |