Experiment summary for ENCSR715XZS
doi:10.17989/ENCSR715XZS
Superseded by ENCSR276GMG
Summary
- Status
- archived
- Assay
- shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
- Target
- XRCC5
- Biosample summary
- Homo sapiens K562 expressing RNAi targeting H. sapiens XRCC5
- Biosample Type
- cell line
- Replication type
- isogenic
- Description
- shRNA knockdown against XRCC5 in K562 cells followed by RNA-seq. (XRCC5 BGKLV13)
- Nucleic acid type
- polyadenylated mRNA
- RNA integrity number
- 9.4 [2-1]9.5 [1-1]
- Size range
- >200
- Extraction method
- Maxwell 16 LEV simpleRNA Cells Kit (Promega cat#: AS1270)
- Fragmentation methods
- chemical (Illumina TruSeq)
- Size selection method
- SPRI beads
- Strand specificity
- Strand-specific (reverse)
- Spike-ins datasets
- ENCSR449DXG
- Platform
- Illumina HiSeq 2000
- Controls
Attribution
ENCODE3 project
- Lab
- Brenton Graveley, UConn
- Award
- U54HG007005 (Brenton Graveley, UConn)
- Project
- ENCODE
- External resources
- References
- Aliases
- brenton-graveley:XRCC5_BGKLV13
- Date submitted
- October 29, 2014
- Date released
- November 20, 2014
- Gene Silencing Series
- ENCSR739QRH
- Submitter comment
- As of November 2022, this dataset is superseded by ENCSR276GMG, which has a better knockdown rate.
- Tags
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Library |
|---|---|---|---|---|---|
| 2 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens XRCC5 | ENCBS278ISQ | ENCGM732GSJ | ENCLB377OOS |
| 1 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens XRCC5 | ENCBS664AUV | ENCGM732GSJ | ENCLB346IYZ |