Experiment summary for ENCSR331DUD
doi:10.17989/ENCSR331DUD
Superseded by ENCSR856CJK
Summary
- Status
- archived
- Assay
- shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
- Target
- DDX55
- Biosample summary
- Homo sapiens K562 expressing RNAi targeting H. sapiens DDX55
- Biosample Type
- cell line
- Replication type
- isogenic
- Description
- shRNA knockdown against DDX55 in K562 cells followed by RNA-seq. (DDX55_BGKLV19)
- Nucleic acid type
- polyadenylated mRNA
- RNA integrity number
- 9.9 [1-1]10 [2-1]
- 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:DDX55_BGKLV19
- Date submitted
- December 11, 2014
- Date released
- December 17, 2014
- Submitter comment
- No western blot result, a good KD experiment has been submitted (ENCSR856CJK, brenton-graveley:DDX55_BGKLV21)
- Tags
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Library |
|---|---|---|---|---|---|
| 1 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens DDX55 | ENCBS746KYH | ENCGM376IEI | ENCLB933JBB |
| 2 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens DDX55 | ENCBS383JPN | ENCGM376IEI | ENCLB422GXQ |