CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
Jurkat cell line, male, Homo sapiens (sorting details: FACS bin for 11-20% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library
released
MeasurementSet
IGVFDS4363PDBQ
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
THP-1 cell line, male, Homo sapiens (sorting details: FACS bin for 0-25% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library
released
MeasurementSet
IGVFDS2419JZMR
CRISPR interference FlowFISH screen integrating a guide (sgRNA) library targeting candidate cis-regulatory elements in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
TeloHAEC cell line, female, Homo sapiens (sorting details: FACS bin for 76-100% expression of TLNRD1) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library
released
MeasurementSet
IGVFDS4736IKQS
unsorted FACS input CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
THP-1 cell line, male, Homo sapiens modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library
released
MeasurementSet
IGVFDS3969UCCQ
CRISPR knockout RNA-seq integrating a guide (sgRNA) library targeting transcription start sites in GATA3
Charles Gersbach, Duke
Sample Summary
CD8-positive, alpha-beta memory T cell, Homo sapiens modified with CRISPRko Sp-Cas9, transduced (lentivirus) with a guide library (MOI of 0.4)
released
MeasurementSet
IGVFDS5041NPBP
mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
Jesse Engreitz, Stanford
Sample Summary
HCT116 cell line, male, Homo sapiens (sorting details: FACS bin F for 80-100% expression of KITLG) modified with CRISPRi Sp-dCas9-KOX1-KRAB, inactive AID system targeting RAD21, transfected with a guide library
released
AuxiliarySet
IGVFDS8473JDSO
quantification DNA barcode sequencing
Jay Shendure, UW
Summary
quantification DNA barcode sequencing for MPRA integrating a reporter library targeting accessible genome regions in many genomic loci
released
intermediate
AnalysisSet
IGVFDS9202ZPBI
ATAC-seq: alignments
Charles Gersbach, Duke
Samples
CD8-positive, alpha-beta memory T cell primary cell, transfected with a expression vector library
released
MeasurementSet
IGVFDS5601DSMT
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
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
released
CuratedSet
IGVFDS3190PUWD
10X Multiome ATAC cell barcode inclusion list
External Lab, Community
Summary
barcodes
released
MeasurementSet
IGVFDS2160ZTSJ
CRISPR knockout FACS screen integrating a guide (sgRNA) library targeting transcription start sites in many genes
Charles Gersbach, Duke
Sample Summary
CD8-positive, alpha-beta memory T cell, Homo sapiens (sorting details: FACS bin for 90-100% expression of IL7R in cells overexpressing BATF3) modified with CRISPRko Sp-Cas9, transduced (lentivirus) with a guide library (MOI of 0.4)
released
intermediate
AnalysisSet
IGVFDS2296EFNK
HiCAR: contact matrix
Charles Gersbach, Duke
Samples
GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell, at 1 time point(s) post change, perturbed with treatment(s), transfected with a guide library
released
principal
AnalysisSet
IGVFDS6344XBAV
ATAC-seq: fold change over control, peak quantifications
Charles Gersbach, Duke
Samples
CD8-positive, alpha-beta memory T cell primary cell, transfected with a expression vector library
released
MeasurementSet
IGVFDS8710ZSOZ
mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
Jesse Engreitz, Stanford
Sample Summary
HCT116 cell line, male, Homo sapiens (sorting details: FACS bin C for 35-45% expression of KITLG) treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours, modified with AID system targeting RAD21, CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library
released
MeasurementSet
IGVFDS7147ANAC
mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
Jesse Engreitz, Stanford
Sample Summary
HCT116 cell line, male, Homo sapiens (sorting details: FACS bin B for 10-20% expression of KITLG) modified with CRISPRi Sp-dCas9-KOX1-KRAB, inactive AID system targeting RAD21, transfected with a guide library
released
AuxiliarySet
IGVFDS3120IRAP
gRNA sequencing
Jesse Engreitz, Stanford
Summary
gRNA sequencing for mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
released
MeasurementSet
IGVFDS9961QTUB
ATAC-seq
Charles Gersbach, Duke
Sample Summary
GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 28 days, male, Homo sapiens treated with 4 μM GSK3 inhibition for 7 days
released
AuxiliarySet
IGVFDS5688OXJC
gRNA sequencing
Jesse Engreitz, Stanford
Summary
gRNA sequencing for mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
released
MeasurementSet
IGVFDS0885VFHW
MPRA integrating a reporter library targeting accessible genome regions in many genomic loci
Jay Shendure, UW
Sample Summary
mouse embryonic stem differentiated cell specimen induced to embryoid body for 14 days, male, Mus musculus WD44 transfected with a reporter library
released
MeasurementSet
IGVFDS3899ANMJ
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
THP-1 cell line, male, Homo sapiens (sorting details: FACS bin for 90-100% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library
released
MeasurementSet
IGVFDS5128CXIS
untransfected prime editing Variant-EFFECTS
Jesse Engreitz, Stanford
Sample Summary
THP-1 cell line, male, Homo sapiens modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2)
released
MeasurementSet
IGVFDS9738RCWL
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
Jurkat cell line, male, Homo sapiens (sorting details: FACS bin for 90-100% expression of PPIF) treated with 100 ng/mL phorbol 13-acetate 12-myristate for 4 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 4 hours, modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library
released
AuxiliarySet
IGVFDS9693EKGR
gRNA sequencing
Charles Gersbach, Duke
Summary
gRNA sequencing for CRISPR interference FACS screen integrating a guide (sgRNA) library targeting transcription start sites in many genes
released
AuxiliarySet
IGVFDS8746LSXO
quantification DNA barcode sequencing
Jay Shendure, UW
Summary
quantification DNA barcode sequencing for MPRA integrating a reporter library targeting accessible genome regions in many genomic loci
released
MeasurementSet
IGVFDS1619VKNB
ATAC-seq integrating an expression vector library of BATF3
Charles Gersbach, Duke
Sample Summary
CD8-positive, alpha-beta memory T cell, Homo sapiens transduced (lentivirus) with a expression vector library