Home

IGVFDS5968XLTS

preview
This object is in preview status. Metadata is subject to change until this object is 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
  • IGVFDS4955GEYO guide (sgRNA) library targeting sequence variants in a genomic locus
Protocols
Aliases
jesse-engreitz:240426S024-PPIFenhancervalidation-THP1_Amp_PPIF_enhancer-BioRep2-FFrep1-BinB_AmpliconSequencing

Sequencing Results (Illumina)

48 items
fastq
reads
I2
1
GGTCCAGA:TATCGCAC
6.9 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
ATTCCTCT:TATCGCAC
6.3 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
GGTCCAGA:TATCGCAC
20 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
CCAGCACC:TATCGCAC
6.0 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
TCTGGCGA:TATCGCAC
6.5 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
TCTGGCGA:TATCGCAC
19 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
CTGCGGAT:TATCGCAC
6.8 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I1
1
GTCTGATG:TATCGCAC
7.5 MB
Jesse Engreitz, Stanford
validated
fastq
reads
R2
1
CTAACTCG:TATCGCAC
17 MB
Jesse Engreitz, Stanford
validated
fastq
reads
I2
1
CTAACTCG:TATCGCAC
6.1 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: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