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Status
released
1755 items
IGVFDS9875NBZW
  • ansuman-satpathy:snRNA-seq_igvf16_10x2
single-nucleus RNA sequencing assay
/human-donors/IGVFDO2817PSCX/, /human-donors/IGVFDO2965ZTUG/, /human-donors/IGVFDO6169GISQ/, /human-donors/IGVFDO0720ONIQ/, /human-donors/IGVFDO4876ENMD/, /human-donors/IGVFDO4532PFAJ/, /human-donors/IGVFDO0324ZSAY/, /human-donors/IGVFDO8129FWUV/, /human-donors/IGVFDO1038DAII/, /human-donors/IGVFDO4001VEAC/, /human-donors/IGVFDO8315PGTI/, /human-donors/IGVFDO7670TOWV/, /human-donors/IGVFDO0183MFIP/, /human-donors/IGVFDO7813GMND/, /human-donors/IGVFDO7725MEWB/, /human-donors/IGVFDO9716HDYX/, /human-donors/IGVFDO7140TLQJ/, /human-donors/IGVFDO7650ICPB/, /human-donors/IGVFDO1221XJAX/, /human-donors/IGVFDO2492CCQG/, /human-donors/IGVFDO9904ZSML/, /human-donors/IGVFDO4452ZQSF/, /human-donors/IGVFDO8129UUAA/, /human-donors/IGVFDO8977PNMK/, /human-donors/IGVFDO3755LIBB/, /human-donors/IGVFDO7470LCGC/, /human-donors/IGVFDO9617JBWJ/, /human-donors/IGVFDO0657EMJH/, /human-donors/IGVFDO2650AGWB/, /human-donors/IGVFDO1364EAZP/, /human-donors/IGVFDO2750DZPB/, /human-donors/IGVFDO8893DMFF/, /human-donors/IGVFDO6162MIWK/, /human-donors/IGVFDO5261UCLF/, /human-donors/IGVFDO2620HPCX/, /human-donors/IGVFDO5656YCPC/, /human-donors/IGVFDO6441FSJH/, /human-donors/IGVFDO1964RNHE/, /human-donors/IGVFDO2379DTAU/, /human-donors/IGVFDO6638HIAD/, /human-donors/IGVFDO2718IDDQ/, /human-donors/IGVFDO4134ZWBU/, /human-donors/IGVFDO5614PTYQ/, /human-donors/IGVFDO5729MXSO/
experimental data
10x multiome with MULTI-seq
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
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
fff841a3-91e6-4773-a75d-9eab106c3723
IGVFDS6464SOVZ
  • richard-sherwood:18loci_uptake_Rep1_bottom20_ms
in vitro CRISPR screen using flow cytometry
experimental data
CRISPR FACS screen
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)
released
CRISPR base editing FACS screen integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide
ffe00f40-ac0d-4488-a686-3882394fe80d
IGVFDS1331MCPD
  • daniel-bauer:ChrX_Screen_no_deaminase_day14_rep2_ms
in vitro CRISPR screen assay
experimental data
Proliferation CRISPR screen
Homo sapiens HUDEP-2 cell line modified with CRISPR cutting SpRY, transduced (lentivirus) with a guide library
released
Proliferation CRISPR cutting screen integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide
ff4d62e6-1ba9-4010-a061-d74377b15a06
IGVFDS2333QYKL
  • richard-sherwood:18loci_uptake_Rep3_top20_ms
in vitro CRISPR screen using flow cytometry
experimental data
CRISPR FACS screen
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
CRISPR base editing FACS screen integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide
ff0b6255-6e09-4686-9119-0b6b88ab65d0
IGVFDS3265EOGA
  • ansuman-satpathy:multiseq_igvf16_10x2
/human-donors/IGVFDO8129UUAA/, /human-donors/IGVFDO1221XJAX/, /human-donors/IGVFDO5729MXSO/, /human-donors/IGVFDO8893DMFF/, /human-donors/IGVFDO0720ONIQ/, /human-donors/IGVFDO4876ENMD/, /human-donors/IGVFDO2620HPCX/, /human-donors/IGVFDO9617JBWJ/, /human-donors/IGVFDO4134ZWBU/, /human-donors/IGVFDO2718IDDQ/, /human-donors/IGVFDO2750DZPB/, /human-donors/IGVFDO4001VEAC/, /human-donors/IGVFDO8977PNMK/, /human-donors/IGVFDO9904ZSML/, /human-donors/IGVFDO7650ICPB/, /human-donors/IGVFDO0183MFIP/, /human-donors/IGVFDO7813GMND/, /human-donors/IGVFDO0324ZSAY/, /human-donors/IGVFDO1038DAII/, /human-donors/IGVFDO8129FWUV/, /human-donors/IGVFDO9716HDYX/, /human-donors/IGVFDO2650AGWB/, /human-donors/IGVFDO2817PSCX/, /human-donors/IGVFDO5614PTYQ/, /human-donors/IGVFDO5656YCPC/, /human-donors/IGVFDO6441FSJH/, /human-donors/IGVFDO5261UCLF/, /human-donors/IGVFDO1964RNHE/, /human-donors/IGVFDO1364EAZP/, /human-donors/IGVFDO6638HIAD/, /human-donors/IGVFDO4532PFAJ/, /human-donors/IGVFDO2492CCQG/, /human-donors/IGVFDO7140TLQJ/, /human-donors/IGVFDO7670TOWV/, /human-donors/IGVFDO4452ZQSF/, /human-donors/IGVFDO2379DTAU/, /human-donors/IGVFDO7725MEWB/, /human-donors/IGVFDO7470LCGC/, /human-donors/IGVFDO8315PGTI/, /human-donors/IGVFDO2965ZTUG/, /human-donors/IGVFDO6169GISQ/, /human-donors/IGVFDO0657EMJH/, /human-donors/IGVFDO3755LIBB/, /human-donors/IGVFDO6162MIWK/
lipid-conjugated oligo sequencing
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
lipid-conjugated oligo sequencing for single-nucleus RNA sequencing assay (10x multiome with MULTI-seq), single-nucleus ATAC-seq (10x multiome with MULTI-seq)
fecb8d55-6ae5-4066-9983-07613d9e62f3
IGVFDS3032KHHX
  • bradley-bernstein:scATAC Lib 113
  • buenrostro-bernstein:scATAC Lib 113
single-cell ATAC-seq
experimental data
SHARE-seq
Mus musculus C57BL/6 (female) brain tissue (cellular sub pool: SS-PKR 130)
released
single-cell ATAC-seq (SHARE-seq)
fec43dfa-d933-4eac-b4cc-2f0a8b5c604d
IGVFDS6647HVMC
  • jesse-engreitz:220829_8merInsertion-Jurkat_NoStimulation-Amp_PPIF_promoter-BioRep3-FFrep1-BinB_AmpliconSequencing
in vitro CRISPR screen using flow cytometry
experimental data
Variant-EFFECTS
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
CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
feb7d08a-1287-4cac-b362-f81fd5ba1f81
IGVFDS7903FOXV
  • ansuman-satpathy:igvf11_analysis_set_10x3
intermediate analysis
multiplexed sample: Homo sapiens (female) H7-hESC differentiated cell specimen; Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 6 days; ... and 10 more samples
Homo sapiens multiplexed sample of GM25256 (WTC-11), H7-hESC
released
10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix
feb0379c-6f89-409c-8579-b32a0aa29fb3
IGVFDS2606PSFA
  • guillaume-lettre:BP_screen_KRAB_R_R3_2_ms
in vitro CRISPR screen using flow cytometry
experimental data
CRISPR FlowFISH screen
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
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
fe84d7f5-150b-45a5-aaed-9810416aa2e7
IGVFDS4363PDBQ
  • jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep2-BinA_AmpliconSequencing
in vitro CRISPR screen using flow cytometry
experimental data
Variant-EFFECTS
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
CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
fe739718-a398-4e5c-b7b5-4d95497c90ad
IGVFDS2419JZMR
  • jesse-engreitz:measurement_set_eRZ10_teloHAEC_TLNRD1_enhancer_CRISPRi_FlowFISH_Rep4_bin4
in vitro CRISPR screen using flow cytometry
experimental data
CRISPR FlowFISH screen
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
CRISPR interference FlowFISH screen sorted on the expression of TLNRD1 integrating a guide (sgRNA) library targeting candidate cis-regulatory elements in a genomic locus
fe738818-a459-4367-8223-af72aa6bca96
IGVFDS4736IKQS
  • jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep4-FACS_Input_AmpliconSequencing
in vitro CRISPR screen using flow cytometry
experimental data
Variant-EFFECTS
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
unsorted FACS input CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
fe6d143f-dbd2-40a5-b72b-55021f81951f
IGVFDS3969UCCQ
  • charles-gersbach:cd8-tcells-rna-seq-cas-ko-gata3-rep3
bulk RNA-seq assay
experimental data
RNA-seq
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
CRISPR knockout RNA-seq integrating a guide (sgRNA) library targeting transcription start sites in GATA3
fe29fcd6-36dd-4bba-acde-cc30fbb5ebc7
IGVFDS5041NPBP
  • jesse-engreitz:measurement_CRUDO_KITLG-Auxin0hrs-FF4-BinF-PCR1_S42
  • jesse-engreitz:measurement_CRUDO_KITLG-Auxin0hrs-FF4-BinF-PCR2_S48
  • jesse-engreitz:measurement_CRUDO_KITLG-Auxin0hrs-FF4-BinF-PCR3_S138
  • jesse-engreitz:measurement_CRUDO_KITLG-Auxin0hrs-FF4-BinF-PCR4_S144
in vitro CRISPR screen using flow cytometry
experimental data
CRISPR FlowFISH screen
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
released
mixed CRISPR FlowFISH screen sorted on the expression of KITLG integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
fe1a8271-fd7e-454e-ae2c-187f1d46d77d
IGVFDS8473JDSO
  • jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day4_reads
quantification DNA barcode sequencing
Mus musculus WD44 (male) mouse embryonic stem differentiated cell specimen induced to embryoid body for 4 days transfected with a reporter library
released
quantification DNA barcode sequencing for MPRA integrating a reporter library targeting accessible genome regions in many genomic loci
fdfabd72-0a73-454b-bf93-f598df360118
IGVFDS5601DSMT
  • jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep2-BinB_AmpliconSequencing
in vitro CRISPR screen using flow cytometry
experimental data
Variant-EFFECTS
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
CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
fd6e5d84-173b-4f03-8de0-67bbec8d433f
IGVFDS3190PUWD
  • igvf:10X_Multiome_ATAC_cell_barcode_inclusion_list_fileset
10X Multiome ATAC cell barcode inclusion list
barcodes
released
barcodes
fd60d197-3dd4-49bb-9493-0d237ec82007
IGVFDS2160ZTSJ
  • charles-gersbach:cd8-tcells-measurement-set-crispr-ko-tfome-batf3-over-high-bin-rep1
in vitro CRISPR screen using flow cytometry
experimental data
CRISPR FACS screen
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
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
fd5cf966-33dd-44fe-a22a-8bde46de6152
IGVFDS5394QLIN
principal analysis
Homo sapiens (male) H1-hESC pooled differentiated cell specimen induced to glutamatergic neuron for 7 days transduced (lentivirus) with a reporter library
Homo sapiens H1-hESC pooled differentiated cell specimen induced to glutamatergic neuron, at 7 day(s) post change, transfected with a reporter library
released
lentiMPRA: reporter genomic variant effects
fd3d80af-bf1b-4559-bce9-dd2368bade54
IGVFDS2296EFNK
  • charles-gersbach:analysis-set-crispra-region3-1umET1-ipsc-cm-targeted-hicar-rep2-cool
intermediate analysis
Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 42 days treated with 1 μM Endothelin-1 for 3 days, transfected with a guide library
GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell, at 42 day(s) post change, perturbed with 1 μM Endothelin-1 for 3 days, transfected with a guide library
released
HiCAR: contact matrix
fd37c4f1-7481-416f-a99d-3810404afa51
IGVFDS5523WWKM
  • buenrostro-bernstein:surya-mouse-colon_mm-set28
single-cell RNA sequencing assay
Colitis_recovered_adenoma APC01-A1-7B,APC01-B1-4B; Control_adenoma APC01-A1-11B,APC01-A1-13B,APC01-B1-6B
experimental data
SHARE-seq
Mus musculus C57BL/6J colon tissue
released
single-cell RNA sequencing assay (SHARE-seq)
fd21fce2-8310-4a1a-9472-9825194b9529
IGVFDS5674PNNL
  • bradley-bernstein:scRNA Lib 6
  • buenrostro-bernstein:scRNA Lib 6
single-cell RNA sequencing assay
experimental data
SHARE-seq
Homo sapiens (male, 37 years) bone marrow cell (cellular sub pool: SS-PKR 1)
released
single-cell RNA sequencing assay (SHARE-seq)
fd18cb66-5594-469d-a3fd-2afcafb23acc
IGVFDS6344XBAV
  • charles-gersbach:cd8-tcells-analysis-set-atac-seq-chronic-activation-batf3
principal analysis
Homo sapiens CD8-positive, alpha-beta memory T cell transduced (lentivirus) with a expression vector library
CD8-positive, alpha-beta memory T primary cell primary cell, transfected with a expression vector library
released
ATAC-seq: alignments, fold change over control, peak quantifications
fcdc0263-c1e7-4ba0-87ba-5bcbfef7461c
IGVFDS3304YLTM
  • chongyuan-luo:pgp_snmct_C37_day3
single-nucleus methylcytosine and transcriptome sequencing assay
experimental data
snMCT-seq
Homo sapiens fibroblast reprogrammed cell specimen induced to induced pluripotent stem cell for 3 days
released
snMCT-seq
fcb096cd-21a2-4295-b5be-32ab0cc8edc0
IGVFDS8710ZSOZ
  • jesse-engreitz:measurement_CRUDO_KITLG-Auxin6hrs-FF2-BinC-PCR1_S63
  • jesse-engreitz:measurement_CRUDO_KITLG-Auxin6hrs-FF2-BinC-PCR2_S69
  • jesse-engreitz:measurement_CRUDO_KITLG-Auxin6hrs-FF2-BinC-PCR3_S159
  • jesse-engreitz:measurement_CRUDO_KITLG-Auxin6hrs-FF2-BinC-PCR4_S165
in vitro CRISPR screen using flow cytometry
experimental data
CRISPR FlowFISH screen
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
mixed CRISPR FlowFISH screen sorted on the expression of KITLG integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
fcaeb9d7-e1f4-4136-9ce7-e43a1f35ee3c