single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
Ansuman Satpathy, Stanford
Sample Summary
multiplexed sample: Homo sapiens (mixed sex) induced pluripotent stem differentiated cell specimen induced to islet of Langerhans for 11 days; Homo sapiens (mixed sex) induced pluripotent stem differentiated cell specimen induced to islet of Langerhans for 3 days; ... and 6 more samples
released
MeasurementSet
IGVFDS6464SOVZ
CRISPR base editing FACS screen integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide
Richard Sherwood, Brigham and Women's Hospital
Sample Summary
Homo sapiens (male) HepG2 cell line (sorting details: Sorted for Bottom 20% LDL-C uptake) modified with CRISPR base editing SpRY-ABE8e, transduced (lentivirus) with a guide library (MOI of 0.5)
Homo sapiens HUDEP-2 cell line modified with CRISPR cutting SpRY, transduced (lentivirus) with a guide library
released
MeasurementSet
IGVFDS2333QYKL
CRISPR base editing FACS screen integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide
Richard Sherwood, Brigham and Women's Hospital
Sample Summary
Homo sapiens (male) HepG2 cell line (sorting details: Sorted for Top 20% LDL-C uptake) modified with CRISPR base editing SpRY-ABE8e, transduced (lentivirus) with a guide library (MOI of 0.5)
released
MeasurementSet
IGVFDS4191KCRM
Parse SPLiT-seq
Ali Mortazavi, UCI
Sample Summary
multiplexed sample: Mus musculus NZO/H1LtJ (female, 69 days) gastrocnemius tissue; Mus musculus NZO/H1LtJ (male, 69 days) left hippocampal formation tissue; ... and 190 more samples
CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
Homo sapiens (male) Jurkat cell line (sorting details: FACS bin for 11-20% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transduced (lentivirus) with a guide library
released
MeasurementSet
IGVFDS2606PSFA
CRISPR interference FlowFISH screen sorted on the expression of NFKBIA integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide associated with blood pressure
Guillaume Lettre, MHI
Sample Summary
Homo sapiens (female) TeloHAEC cell line (sorting details: FACS 60-80% expression of NFKBIA) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transduced (lentivirus) with a guide library
released
MeasurementSet
IGVFDS4363PDBQ
CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
Homo sapiens (male) THP-1 cell line (sorting details: FACS bin for 0-25% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transduced (lentivirus) with a guide library
released
MeasurementSet
IGVFDS2419JZMR
CRISPR interference FlowFISH screen sorted on the expression of TLNRD1 integrating a guide (sgRNA) library targeting candidate cis-regulatory elements in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
Homo sapiens (female) TeloHAEC cell line (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
Homo sapiens (male) THP-1 cell line modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transduced (lentivirus) 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
Homo sapiens CD8-positive, alpha-beta memory T cell modified with CRISPRko Sp-Cas9, transduced (lentivirus) with a guide library (MOI of 0.4)
released
MeasurementSet
IGVFDS5041NPBP
mixed CRISPR FlowFISH screen sorted on the expression of KITLG integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
Jesse Engreitz, Stanford
Sample Summary
Homo sapiens (male) HCT116 cell line (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
CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
Jesse Engreitz, Stanford
Sample Summary
Homo sapiens (male) THP-1 cell line (sorting details: FACS bin for 26-50% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transduced (lentivirus) with a guide library
released
MeasurementSet
IGVFDS2160ZTSJ
CRISPR knockout FACS screen sorted on the expression of IL7R integrating an expression vector library of BATF3 and a guide (sgRNA) library targeting transcription start sites in many genes
Charles Gersbach, Duke
Sample Summary
Homo sapiens CD8-positive, alpha-beta memory T cell (sorting details: FACS bin for 90-100% expression of IL7R in cells overexpressing BATF3) modified with CRISPRko Sp-Cas9, transduced (lentivirus) with multiple libraries (MOI of 0.4)
released
MeasurementSet
IGVFDS1381GERK
Parse SPLiT-seq
Ali Mortazavi, UCI
Sample Summary
multiplexed sample: Mus musculus WSB/EiJ (male, 69 days) heart tissue; Mus musculus NZO/H1LtJ (female, 69 days) left cerebral cortex tissue; ... and 12 more samples
released
MeasurementSet
IGVFDS5523WWKM
single-cell RNA sequencing assay (SHARE-seq)
Jason Buenrostro, Broad
Sample Summary
Mus musculus C57BL/6J colon tissue
released
MeasurementSet
IGVFDS1177QLBB
single-cell RNA sequencing assay (SHARE-seq)
Jason Buenrostro, Broad
Sample Summary
Homo sapiens induced pluripotent stem pooled differentiated cell specimen induced to hepatic oval stem cell for 7 days (cellular sub pool: SS-PKR 171)
released
MeasurementSet
IGVFDS5674PNNL
single-cell RNA sequencing assay (SHARE-seq)
Jason Buenrostro, Broad
Sample Summary
Homo sapiens (male, 37 years) bone marrow cell (cellular sub pool: SS-PKR 1)
released
MeasurementSet
IGVFDS3304YLTM
snMCT-seq
Chongyuan Luo, UCLA
Sample Summary
Homo sapiens fibroblast reprogrammed cell specimen induced to induced pluripotent stem cell for 3 days
released
MeasurementSet
IGVFDS8710ZSOZ
mixed CRISPR FlowFISH screen sorted on the expression of KITLG integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
Jesse Engreitz, Stanford
Sample Summary
Homo sapiens (male) HCT116 cell line (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 sorted on the expression of KITLG integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
Jesse Engreitz, Stanford
Sample Summary
Homo sapiens (male) HCT116 cell line (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