Experiment summary for ENCSR952OOP
doi:10.17989/ENCSR952OOP
Summary
- Status
- archived
- Assay
- shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
- Target
- CKAP4
- Biosample summary
- Homo sapiens K562 expressing RNAi targeting H. sapiens CKAP4
- Biosample Type
- cell line
- Replication type
- isogenic
- Description
- RNA-seq on K562 cells treated with an shRNA knockdown against CKAP4. (CKAP4-BGKLV36-B)
- Nucleic acid type
- polyadenylated mRNA
- RNA integrity number
- 9.5
- 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)
- Platform
- Illumina HiSeq 2500
- Controls
Attribution
ENCODE3 project
- Lab
- Brenton Graveley, UConn
- Award
- U54HG007005 (Brenton Graveley, UConn)
- Project
- ENCODE
- External resources
- Aliases
- brenton-graveley:CKAP4-BGKLV36-B
- Date submitted
- November 20, 2017
- Date released
- December 6, 2017
- Gene Silencing Series
- ENCSR718WJL
- Submitter comment
- This dataset is superseded by ENCSR940GIC, which includes spike-ins.
- Tags
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Library |
|---|---|---|---|---|---|
| 1 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens CKAP4 | ENCBS704TWA | ENCGM846SAO | ENCLB849YAI |
| 2 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens CKAP4 | ENCBS672MAJ | ENCGM846SAO | ENCLB992BJN |