1. Experiments
  2. CRISPR genome editing followed by RNA-seq
  3. Homo sapiens
  4. K562

Experiment summary for ENCSR415DJT

doi:10.17989/ENCSR415DJT

Summary

Status
archived
Assay
CRISPR genome editing followed by RNA-seq (CRISPR RNA-seq)
Target
PTBP1
Biosample summary
Homo sapiens K562 genetically modified (deletion) using CRISPR targeting H. sapiens PTBP1
Biosample Type
cell line
Replication type
isogenic
Description
RNA-seq on K562 cells treated with a CRISPR gRNA against PTBP1. (PTBP1_BGKcLV02)
Nucleic acid type
polyadenylated mRNA
RNA integrity number
9.9
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
ENCSR358OMW
Controls

Attribution

ENCODE3 project
Lab
Brenton Graveley, UConn
Award
U54HG007005 (Brenton Graveley, UConn)
Project
ENCODE
External resources
Aliases
brenton-graveley:PTBP1_BGKcLV02
Date submitted
March 9, 2016
Date released
March 17, 2016
Tags
Visit collection page for ENCORESearch for all Experiment with internal tag ENCYCLOPEDIAv1Search for all Experiment with internal tag ENCYCLOPEDIAv2

Isogenic replicates

Isogenic replicate
Technical replicate
Summary
Biosample
Modifications
Library
21Homo sapiens K562 cell line genetically modified (deletion) using CRISPR targeting H. sapiens PTBP1ENCBS829QELENCGM739OBVENCLB127PMC
11Homo sapiens K562 cell line genetically modified (deletion) using CRISPR targeting H. sapiens PTBP1ENCBS017GMYENCGM739OBVENCLB411TOM

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