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IGVFDS8140CVHC

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File Set Type
experimental data
Summary
CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Assay Term
in vitro CRISPR screen using flow cytometry
Targeted Genes
Sample Summaries
  • THP-1 cell line, male, Homo sapiens (sorting details: FACS bin for 76-100% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library
Construct Library Sets
  • IGVFDS4955GEYO guide (sgRNA) library targeting sequence variants in a genomic locus
Protocols
Aliases
jesse-engreitz:240426S024-PPIFenhancervalidation-THP1_Amp_PPIF_enhancer-BioRep2-FFrep2-BinD_AmpliconSequencing

Sequencing Results (Illumina)

48 items
fastq
reads
R1
1
TTGTCTAT:TATCGCAC
17 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
TTGTCTAT:TATCGCAC
19 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
ATTCTAGG:TATCGCAC
7.0 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
ATTCTAGG:TATCGCAC
19 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
ATTCTAGG:TATCGCAC
7.4 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
TAATGAAC:TATCGCAC
8.2 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
TTATATCT:TATCGCAC
6.2 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
TATCCAGG:TATCGCAC
8.2 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
TGTAACTC:TATCGCAC
7.6 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
TGCTGCTG:TATCGCAC
7.6 MB
Jesse Engreitz, Stanford
validated

Samples

1 item
Accession
Type
Sample Terms
Summary
InVitroSystem
THP-1 cell line, male, Homo sapiens (sorting details: FACS bin for 76-100% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library

Donors

1 item
Accession
Aliases
Sex
Taxa
  • igvf:donor_of_THP1
male
Homo sapiens

Control File Sets

1 item
Accession
Type
Summary
Aliases
Lab
MeasurementSet
prime editing Variant-EFFECTS sorted on the expression of PPIF
  • jesse-engreitz:240426S024-PPIFenhancervalidation-THP1_Amp_PPIF_enhancer-THP1-PE2_Exp4_NegControl_AmpliconSequencing
Jesse Engreitz, Stanford

File Sets Using This Measurement Set as an Input

1 item
Accession
Type
Summary
Aliases
Lab
AnalysisSet
prime editing Variant-EFFECTS targeting PPIF: variant effects
  • jesse-engreitz:PPIF_enhancer_10pegRNA_validation-THP1_Variant-EFFECTS_analysis
Jesse Engreitz, Stanford

Attribution

Award
HG011972
Principal Investigator(s)
Contact P.I.
Jesse Engreitz
Lab
Jesse Engreitz, Stanford