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IGVFDS6052JSPO

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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 26-50% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library
Construct Library Sets
  • IGVFDS6555EOZU guide (sgRNA) library targeting sequence variants in a genomic locus
Protocols
Aliases
jesse-engreitz:240908-S029-PPIF_5SpliceSite-IndividualVariantExp-AGGT_TCAG-THP1-BioRep2-FFrep1-BinB_AmpliconSequencing

Sequencing Results (Illumina)

16 items
fastq
reads
I1
1
GAACCTAG:TATGAGTA
3.3 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
ATTGTCTG:TATGAGTA
2.3 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
TAATGAAC:TATGAGTA
29 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
TAATGAAC:TATGAGTA
33 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
TAATGAAC:TATGAGTA
10 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
GAACCTAG:TATGAGTA
8.7 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
TCTCGGTC:TATGAGTA
8.6 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
TAATGAAC:TATGAGTA
12 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
ATTGTCTG:TATGAGTA
7.2 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
TCTCGGTC:TATGAGTA
2.9 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 26-50% 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:THP1-PE2_Exp7_PPIF_5SpliceSite-IndividualVariantExp_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_5SpliceSite-IndividualVariantExp-AGGT_TCAG-THP1_Variant-EFFECTS_analysis
Jesse Engreitz, Stanford

Attribution

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