Experiment summary for ENCSR119QWQ
doi:10.17989/ENCSR119QWQ
Superseded by ENCSR298ASI
Summary
- Status
- archived
- Assay
- shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
- Target
- DDX6
- Biosample summary
- Homo sapiens K562 expressing RNAi targeting H. sapiens DDX6
- Biosample Type
- cell line
- Replication type
- isogenic
- Description
- shRNA knockdown against DDX6 in K562 cells followed by RNA-seq. (DDX6-LV08)
- Nucleic acid type
- polyadenylated mRNA
- RNA integrity number
- 9.1 [1-1]9.3 [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:DDX6-LV08
- Date submitted
- September 15, 2014
- Date released
- October 16, 2014
- Gene Silencing Series
- ENCSR501LFJ
- Submitter comment
- As of November 2022, this dataset is superseded by ENCSR298ASI, which has a better knockdown rate.
- Tags
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Library |
|---|---|---|---|---|---|
| 1 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens DDX6 | ENCBS107DSY | ENCGM115GLI | ENCLB619RKQ |
| 2 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens DDX6 | ENCBS014ZBK | ENCGM115GLI | ENCLB079YXP |