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IGVFDS3800XFMC

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File Set Type
experimental data
Summary
CRISPR prime editing Variant-EFFECTS 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 51-75% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library
Construct Library Sets
  • IGVFDS5639ITBS guide (sgRNA) library targeting sequence variants in a genomic locus
Protocols
Aliases
jesse-engreitz:240908-S029-PPIF_5SpliceSitePool-THP1-BioRep1-FFrep1-BinC_AmpliconSequencing

Sequencing Results (Illumina)

16 items
fastq
reads
I2
1
CATAGCGA:GATATCGA
4.1 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
CATAGCGA:GATATCGA
4.1 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
GCACACGA:GATATCGA
21 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
CATAGCGA:GATATCGA
13 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
TCTGGCGA:GATATCGA
29 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
GCACACGA:GATATCGA
7.1 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
CAGGAGCC:GATATCGA
14 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
CAGGAGCC:GATATCGA
4.7 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
CAGGAGCC:GATATCGA
4.4 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
CAGGAGCC:GATATCGA
12 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 51-75% 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
  • jesse-engreitz:240908-S029-PPIF_5SpliceSitePool-THP1-PE2_Exp6_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:240908-S029-PPIF_5SpliceSitePool-THP1_Variant-EFFECTS_analysis
Jesse Engreitz, Stanford

Attribution

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