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IGVFDS0403DJHI

released
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
  • IGVFDS6982DESN guide (sgRNA) library targeting sequence variants in a genomic locus
Protocols
Aliases
jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep1-FFrep1-BinB_AmpliconSequencing

Sequencing Results (Illumina)

48 items
fastq
reads
I1
1
AGGTTATC:GTCA
3.5 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
CTAACTCG:GTCA
16 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
AGGTTATC:GTCA
3.2 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
AGGATCTA:GTCA
11 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
AGGATCTA:GTCA
8.1 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
CCAACATT:GTCA
18 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R1
1
CCAGCACC:GTCA
6.9 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
CTGCGGAT:GTCA
9.7 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
GGTCCAGA:GTCA
3.6 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
TCTGGCGA:GTCA
3.2 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
untransfected prime editing Variant-EFFECTS
  • jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-THP1-PE2_Exp2_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_promoter_tiling_THP1_Variant-FlowFISH_analysis
Jesse Engreitz, Stanford

Attribution

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