{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS6071XLAA/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS6071XLAA",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA_AmpliconSequencing"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003661/",
"assay_slims": [
"CRISPR screens"
],
"status": "released",
"term_name": "in vitro CRISPR screen using flow cytometry"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM5040QPRO](/in-vitro-systems/IGVFSM5040QPRO/) has in progress subobject construct library set [IGVFDS2374NXLW](/construct-library-sets/IGVFDS2374NXLW/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM5040QPRO/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM5040QPRO](/in-vitro-systems/IGVFSM5040QPRO/) has no `publications`. Released and archived samples are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_sample_missing_publication",
"path": "/in-vitro-systems/IGVFSM5040QPRO/"
},
{
"category": "missing publication",
"detail": "Measurement set [IGVFDS6071XLAA](/measurement-sets/IGVFDS6071XLAA/) has no `publications`. Released and archived file sets are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_file_set_missing_publication",
"path": "/measurement-sets/IGVFDS6071XLAA/"
},
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS6071XLAA](/measurement-sets/IGVFDS6071XLAA/) has sequence file(s) [IGVFFI3794GSRI](/sequence-files/IGVFFI3794GSRI/), [IGVFFI3505PJZB](/sequence-files/IGVFFI3505PJZB/), [IGVFFI5893PBZH](/sequence-files/IGVFFI5893PBZH/), [IGVFFI7808LBEB](/sequence-files/IGVFFI7808LBEB/), [IGVFFI0756SUMN](/sequence-files/IGVFFI0756SUMN/), [IGVFFI7873SGBU](/sequence-files/IGVFFI7873SGBU/), [IGVFFI9443ZGZC](/sequence-files/IGVFFI9443ZGZC/), [IGVFFI3245EKTZ](/sequence-files/IGVFFI3245EKTZ/), [IGVFFI0944LZTP](/sequence-files/IGVFFI0944LZTP/), [IGVFFI5352KGGP](/sequence-files/IGVFFI5352KGGP/), [IGVFFI8873HTNQ](/sequence-files/IGVFFI8873HTNQ/), [IGVFFI8801VOKH](/sequence-files/IGVFFI8801VOKH/), [IGVFFI8281TIQB](/sequence-files/IGVFFI8281TIQB/), [IGVFFI2648ZUFH](/sequence-files/IGVFFI2648ZUFH/), [IGVFFI0637MWTB](/sequence-files/IGVFFI0637MWTB/), [IGVFFI1626AMKM](/sequence-files/IGVFFI1626AMKM/), [IGVFFI6225DUUC](/sequence-files/IGVFFI6225DUUC/), [IGVFFI5718LWBF](/sequence-files/IGVFFI5718LWBF/), [IGVFFI7953WSZJ](/sequence-files/IGVFFI7953WSZJ/), [IGVFFI9950AWEV](/sequence-files/IGVFFI9950AWEV/), [IGVFFI9726ROVJ](/sequence-files/IGVFFI9726ROVJ/), [IGVFFI8068QTGW](/sequence-files/IGVFFI8068QTGW/), [IGVFFI1510GDPS](/sequence-files/IGVFFI1510GDPS/), [IGVFFI7720EIBV](/sequence-files/IGVFFI7720EIBV/), [IGVFFI4381NFHJ](/sequence-files/IGVFFI4381NFHJ/), [IGVFFI9020CMHM](/sequence-files/IGVFFI9020CMHM/), [IGVFFI1771ELYW](/sequence-files/IGVFFI1771ELYW/), [IGVFFI0008XSRO](/sequence-files/IGVFFI0008XSRO/), [IGVFFI5323PYXG](/sequence-files/IGVFFI5323PYXG/), [IGVFFI1090FUQZ](/sequence-files/IGVFFI1090FUQZ/), [IGVFFI0722GZHY](/sequence-files/IGVFFI0722GZHY/), [IGVFFI7857WEFR](/sequence-files/IGVFFI7857WEFR/), [IGVFFI0224JDGO](/sequence-files/IGVFFI0224JDGO/), [IGVFFI8642MAZK](/sequence-files/IGVFFI8642MAZK/), [IGVFFI8503BWOL](/sequence-files/IGVFFI8503BWOL/), [IGVFFI8956PDYX](/sequence-files/IGVFFI8956PDYX/), [IGVFFI6953LNTC](/sequence-files/IGVFFI6953LNTC/), [IGVFFI9395HRYY](/sequence-files/IGVFFI9395HRYY/), [IGVFFI8041TBBD](/sequence-files/IGVFFI8041TBBD/), [IGVFFI9214AQWH](/sequence-files/IGVFFI9214AQWH/), [IGVFFI0452OHDI](/sequence-files/IGVFFI0452OHDI/), [IGVFFI1667HWTQ](/sequence-files/IGVFFI1667HWTQ/), [IGVFFI4322UEUW](/sequence-files/IGVFFI4322UEUW/), [IGVFFI7933VRZU](/sequence-files/IGVFFI7933VRZU/), [IGVFFI8149LUHI](/sequence-files/IGVFFI8149LUHI/), [IGVFFI8053JCMT](/sequence-files/IGVFFI8053JCMT/), [IGVFFI5644FLWR](/sequence-files/IGVFFI5644FLWR/), [IGVFFI3696OSXV](/sequence-files/IGVFFI3696OSXV/) which lack specification of a `sequencing_kit`. Sequence files in a file set associated wtih bulk data should specify a sequencing kit.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_inconsistent_sequencing_kit",
"path": "/measurement-sets/IGVFDS6071XLAA/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS6071XLAA](/measurement-sets/IGVFDS6071XLAA/) has sequence file(s): [IGVFFI3794GSRI](/sequence-files/IGVFFI3794GSRI/), [IGVFFI3505PJZB](/sequence-files/IGVFFI3505PJZB/), [IGVFFI5893PBZH](/sequence-files/IGVFFI5893PBZH/), [IGVFFI7808LBEB](/sequence-files/IGVFFI7808LBEB/), [IGVFFI0756SUMN](/sequence-files/IGVFFI0756SUMN/), [IGVFFI7873SGBU](/sequence-files/IGVFFI7873SGBU/), [IGVFFI9443ZGZC](/sequence-files/IGVFFI9443ZGZC/), [IGVFFI3245EKTZ](/sequence-files/IGVFFI3245EKTZ/), [IGVFFI0944LZTP](/sequence-files/IGVFFI0944LZTP/), [IGVFFI5352KGGP](/sequence-files/IGVFFI5352KGGP/), [IGVFFI8873HTNQ](/sequence-files/IGVFFI8873HTNQ/), [IGVFFI8801VOKH](/sequence-files/IGVFFI8801VOKH/), [IGVFFI8281TIQB](/sequence-files/IGVFFI8281TIQB/), [IGVFFI2648ZUFH](/sequence-files/IGVFFI2648ZUFH/), [IGVFFI0637MWTB](/sequence-files/IGVFFI0637MWTB/), [IGVFFI1626AMKM](/sequence-files/IGVFFI1626AMKM/), [IGVFFI6225DUUC](/sequence-files/IGVFFI6225DUUC/), [IGVFFI5718LWBF](/sequence-files/IGVFFI5718LWBF/), [IGVFFI7953WSZJ](/sequence-files/IGVFFI7953WSZJ/), [IGVFFI9950AWEV](/sequence-files/IGVFFI9950AWEV/), [IGVFFI9726ROVJ](/sequence-files/IGVFFI9726ROVJ/), [IGVFFI8068QTGW](/sequence-files/IGVFFI8068QTGW/), [IGVFFI1510GDPS](/sequence-files/IGVFFI1510GDPS/), [IGVFFI7720EIBV](/sequence-files/IGVFFI7720EIBV/), [IGVFFI4381NFHJ](/sequence-files/IGVFFI4381NFHJ/), [IGVFFI9020CMHM](/sequence-files/IGVFFI9020CMHM/), [IGVFFI1771ELYW](/sequence-files/IGVFFI1771ELYW/), [IGVFFI0008XSRO](/sequence-files/IGVFFI0008XSRO/), [IGVFFI5323PYXG](/sequence-files/IGVFFI5323PYXG/), [IGVFFI1090FUQZ](/sequence-files/IGVFFI1090FUQZ/), [IGVFFI0722GZHY](/sequence-files/IGVFFI0722GZHY/), [IGVFFI7857WEFR](/sequence-files/IGVFFI7857WEFR/), [IGVFFI0224JDGO](/sequence-files/IGVFFI0224JDGO/), [IGVFFI8642MAZK](/sequence-files/IGVFFI8642MAZK/), [IGVFFI8503BWOL](/sequence-files/IGVFFI8503BWOL/), [IGVFFI8956PDYX](/sequence-files/IGVFFI8956PDYX/), [IGVFFI6953LNTC](/sequence-files/IGVFFI6953LNTC/), [IGVFFI9395HRYY](/sequence-files/IGVFFI9395HRYY/), [IGVFFI8041TBBD](/sequence-files/IGVFFI8041TBBD/), [IGVFFI9214AQWH](/sequence-files/IGVFFI9214AQWH/), [IGVFFI0452OHDI](/sequence-files/IGVFFI0452OHDI/), [IGVFFI1667HWTQ](/sequence-files/IGVFFI1667HWTQ/), [IGVFFI4322UEUW](/sequence-files/IGVFFI4322UEUW/), [IGVFFI7933VRZU](/sequence-files/IGVFFI7933VRZU/), [IGVFFI8149LUHI](/sequence-files/IGVFFI8149LUHI/), [IGVFFI8053JCMT](/sequence-files/IGVFFI8053JCMT/), [IGVFFI5644FLWR](/sequence-files/IGVFFI5644FLWR/), [IGVFFI3696OSXV](/sequence-files/IGVFFI3696OSXV/) which do not have any `seqspecs`. Sequence files in a file set associated with bulk data are expected to link to a sequence specification file.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_missing_seqspec",
"path": "/measurement-sets/IGVFDS6071XLAA/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS6071XLAA](/measurement-sets/IGVFDS6071XLAA/) has no cell sorting `auxiliary_sets`. CRISPR-based measurement sets that utilize flow cytometry are expected to link to a cell sorting auxiliary set.",
"level": 40,
"level_name": "WARNING",
"name": "audit_missing_auxiliary_set",
"path": "/measurement-sets/IGVFDS6071XLAA/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization",
"contact_pi": {
"@id": "/users/6c75dbfa-635e-4a7a-8ec8-9e51e9c380a4/",
"title": "Jesse Engreitz"
},
"title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
},
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS2374NXLW/",
"accession": "IGVFDS2374NXLW",
"file_set_type": "guide library",
"status": "in progress",
"summary": "guide (sgRNA) library targeting sequence variants in a genomic locus"
}
],
"control_file_sets": [
{
"@id": "/measurement-sets/IGVFDS4989HPTW/",
"accession": "IGVFDS4989HPTW",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-THP1-PE2_Exp1_NegControl_AmpliconSequencing"
],
"status": "released"
}
],
"control_for": [],
"creation_timestamp": "2023-11-30T22:48:57.651032+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO7359LVPI/",
"accession": "IGVFDO7359LVPI",
"aliases": [
"igvf:donor_of_THP1"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI3794GSRI/",
"accession": "IGVFFI3794GSRI",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep11_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:15:52.319532+00:00",
"file_format": "fastq",
"file_size": 5524134,
"href": "/sequence-files/IGVFFI3794GSRI/@@download/IGVFFI3794GSRI.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/7c840fe4-99dc-40cb-af7b-a86e130aae93/IGVFFI3794GSRI.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep11_S107_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3505PJZB/",
"accession": "IGVFFI3505PJZB",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep1_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:14:19.621860+00:00",
"file_format": "fastq",
"file_size": 909448,
"href": "/sequence-files/IGVFFI3505PJZB/@@download/IGVFFI3505PJZB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/0b5d757b-e797-4eee-bf96-5008f3b194cb/IGVFFI3505PJZB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep1_S7_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5893PBZH/",
"accession": "IGVFFI5893PBZH",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep5_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:19:05.468133+00:00",
"file_format": "fastq",
"file_size": 3487583,
"href": "/sequence-files/IGVFFI5893PBZH/@@download/IGVFFI5893PBZH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/77093cb2-f6c5-4894-8f56-c3339d46cfcb/IGVFFI5893PBZH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep5_S11_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7808LBEB/",
"accession": "IGVFFI7808LBEB",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep12_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:16:42.712989+00:00",
"file_format": "fastq",
"file_size": 7124515,
"href": "/sequence-files/IGVFFI7808LBEB/@@download/IGVFFI7808LBEB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/1263fedc-d091-4e03-a156-7e53fa1a8ea8/IGVFFI7808LBEB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep12_S108_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0756SUMN/",
"accession": "IGVFFI0756SUMN",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep9_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:21:34.072198+00:00",
"file_format": "fastq",
"file_size": 5496770,
"href": "/sequence-files/IGVFFI0756SUMN/@@download/IGVFFI0756SUMN.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/338aa25f-979e-45f2-befb-103737c13070/IGVFFI0756SUMN.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep9_S105_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7873SGBU/",
"accession": "IGVFFI7873SGBU",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep3_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:17:38.336524+00:00",
"file_format": "fastq",
"file_size": 913671,
"href": "/sequence-files/IGVFFI7873SGBU/@@download/IGVFFI7873SGBU.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/3d249810-d803-4ce1-bd2e-4b8e10caee89/IGVFFI7873SGBU.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep3_S9_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9443ZGZC/",
"accession": "IGVFFI9443ZGZC",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep8_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:20:47.593478+00:00",
"file_format": "fastq",
"file_size": 1457063,
"href": "/sequence-files/IGVFFI9443ZGZC/@@download/IGVFFI9443ZGZC.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/764b4389-768a-4b3a-8c61-06f3f63191ff/IGVFFI9443ZGZC.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep8_S104_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3245EKTZ/",
"accession": "IGVFFI3245EKTZ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep4_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:18:37.818944+00:00",
"file_format": "fastq",
"file_size": 4144156,
"href": "/sequence-files/IGVFFI3245EKTZ/@@download/IGVFFI3245EKTZ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/065b8d25-7457-4e93-a75b-f34e63b61ba9/IGVFFI3245EKTZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep4_S10_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0944LZTP/",
"accession": "IGVFFI0944LZTP",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep10_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:15:15.360078+00:00",
"file_format": "fastq",
"file_size": 5298661,
"href": "/sequence-files/IGVFFI0944LZTP/@@download/IGVFFI0944LZTP.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/5840fd9a-cc87-46bb-b078-0a2be7e97810/IGVFFI0944LZTP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep10_S106_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5352KGGP/",
"accession": "IGVFFI5352KGGP",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep9_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:21:43.247706+00:00",
"file_format": "fastq",
"file_size": 7019217,
"href": "/sequence-files/IGVFFI5352KGGP/@@download/IGVFFI5352KGGP.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/89ebbfd7-ece8-4696-a5bf-1a0a5168fbc6/IGVFFI5352KGGP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep9_S105_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8873HTNQ/",
"accession": "IGVFFI8873HTNQ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep11_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:16:01.569500+00:00",
"file_format": "fastq",
"file_size": 7045219,
"href": "/sequence-files/IGVFFI8873HTNQ/@@download/IGVFFI8873HTNQ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/7535d6c8-7689-451e-9a7d-41c83468ae07/IGVFFI8873HTNQ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep11_S107_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8801VOKH/",
"accession": "IGVFFI8801VOKH",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep2_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:17:01.058133+00:00",
"file_format": "fastq",
"file_size": 936880,
"href": "/sequence-files/IGVFFI8801VOKH/@@download/IGVFFI8801VOKH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/e276b433-25d8-42b3-a123-3336ea8cadb3/IGVFFI8801VOKH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep2_S8_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8281TIQB/",
"accession": "IGVFFI8281TIQB",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep6_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:19:33.670071+00:00",
"file_format": "fastq",
"file_size": 866967,
"href": "/sequence-files/IGVFFI8281TIQB/@@download/IGVFFI8281TIQB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/27619e48-0e60-4e8e-bc34-b2710ebabd1a/IGVFFI8281TIQB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep6_S12_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2648ZUFH/",
"accession": "IGVFFI2648ZUFH",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep7_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:20:10.465715+00:00",
"file_format": "fastq",
"file_size": 1382393,
"href": "/sequence-files/IGVFFI2648ZUFH/@@download/IGVFFI2648ZUFH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/5ffc0383-96c1-47a8-8a16-bf2b52ecd0c6/IGVFFI2648ZUFH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep7_S103_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0637MWTB/",
"accession": "IGVFFI0637MWTB",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep10_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:15:06.133920+00:00",
"file_format": "fastq",
"file_size": 1398949,
"href": "/sequence-files/IGVFFI0637MWTB/@@download/IGVFFI0637MWTB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/bc836172-9119-49e4-8073-6e31c4cdf920/IGVFFI0637MWTB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep10_S106_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1626AMKM/",
"accession": "IGVFFI1626AMKM",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep1_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:14:38.195156+00:00",
"file_format": "fastq",
"file_size": 3591607,
"href": "/sequence-files/IGVFFI1626AMKM/@@download/IGVFFI1626AMKM.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/c2319e5f-00f4-4b95-99dd-26a5bc5f5c8d/IGVFFI1626AMKM.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep1_S7_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6225DUUC/",
"accession": "IGVFFI6225DUUC",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep11_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:15:43.169305+00:00",
"file_format": "fastq",
"file_size": 1467856,
"href": "/sequence-files/IGVFFI6225DUUC/@@download/IGVFFI6225DUUC.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/9a94928d-8aba-4fd7-b05c-bd972efd17eb/IGVFFI6225DUUC.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep11_S107_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5718LWBF/",
"accession": "IGVFFI5718LWBF",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep5_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:18:56.255782+00:00",
"file_format": "fastq",
"file_size": 868258,
"href": "/sequence-files/IGVFFI5718LWBF/@@download/IGVFFI5718LWBF.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/f4e6d965-3242-4b10-bc4d-a10b28de20e7/IGVFFI5718LWBF.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep5_S11_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7953WSZJ/",
"accession": "IGVFFI7953WSZJ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep3_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:17:56.943836+00:00",
"file_format": "fastq",
"file_size": 4323184,
"href": "/sequence-files/IGVFFI7953WSZJ/@@download/IGVFFI7953WSZJ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/7712c8f3-084c-4f33-aee2-8b86f6c323a6/IGVFFI7953WSZJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep3_S9_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9950AWEV/",
"accession": "IGVFFI9950AWEV",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep12_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:16:29.553716+00:00",
"file_format": "fastq",
"file_size": 5568284,
"href": "/sequence-files/IGVFFI9950AWEV/@@download/IGVFFI9950AWEV.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/55c8b220-8c9d-43e3-af69-2b2e221d8a9a/IGVFFI9950AWEV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep12_S108_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9726ROVJ/",
"accession": "IGVFFI9726ROVJ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep8_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:20:56.924510+00:00",
"file_format": "fastq",
"file_size": 5498050,
"href": "/sequence-files/IGVFFI9726ROVJ/@@download/IGVFFI9726ROVJ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/5c8ed5fa-f743-4dea-ad7f-bad843f99aa5/IGVFFI9726ROVJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep8_S104_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8068QTGW/",
"accession": "IGVFFI8068QTGW",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep6_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:19:42.836165+00:00",
"file_format": "fastq",
"file_size": 3510442,
"href": "/sequence-files/IGVFFI8068QTGW/@@download/IGVFFI8068QTGW.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/e2cd697e-eaf9-46de-ac6b-9d849703885f/IGVFFI8068QTGW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep6_S12_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1510GDPS/",
"accession": "IGVFFI1510GDPS",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep4_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:18:28.527995+00:00",
"file_format": "fastq",
"file_size": 3515180,
"href": "/sequence-files/IGVFFI1510GDPS/@@download/IGVFFI1510GDPS.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/1073a3ec-77d5-4168-b1b4-9d0179e0c9ec/IGVFFI1510GDPS.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep4_S10_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7720EIBV/",
"accession": "IGVFFI7720EIBV",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep4_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:18:06.115735+00:00",
"file_format": "fastq",
"file_size": 877644,
"href": "/sequence-files/IGVFFI7720EIBV/@@download/IGVFFI7720EIBV.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/95f30f37-9d41-4317-b04c-0f4a9e06f9ad/IGVFFI7720EIBV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep4_S10_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4381NFHJ/",
"accession": "IGVFFI4381NFHJ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep7_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:20:29.009736+00:00",
"file_format": "fastq",
"file_size": 6664661,
"href": "/sequence-files/IGVFFI4381NFHJ/@@download/IGVFFI4381NFHJ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/1604d30f-8165-4d6c-80ea-aaad7c73bef4/IGVFFI4381NFHJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep7_S103_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9020CMHM/",
"accession": "IGVFFI9020CMHM",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep3_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:17:29.281903+00:00",
"file_format": "fastq",
"file_size": 946032,
"href": "/sequence-files/IGVFFI9020CMHM/@@download/IGVFFI9020CMHM.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/aa25b8bc-0dea-4a9b-8f76-8bb1ec573b73/IGVFFI9020CMHM.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep3_S9_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1771ELYW/",
"accession": "IGVFFI1771ELYW",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep9_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:21:15.488050+00:00",
"file_format": "fastq",
"file_size": 1577462,
"href": "/sequence-files/IGVFFI1771ELYW/@@download/IGVFFI1771ELYW.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/ab909744-f601-4e16-b402-338d92c0bfea/IGVFFI1771ELYW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep9_S105_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0008XSRO/",
"accession": "IGVFFI0008XSRO",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep7_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:20:19.723693+00:00",
"file_format": "fastq",
"file_size": 5182505,
"href": "/sequence-files/IGVFFI0008XSRO/@@download/IGVFFI0008XSRO.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/fe447de9-5f45-441e-8892-08ee665dce56/IGVFFI0008XSRO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep7_S103_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5323PYXG/",
"accession": "IGVFFI5323PYXG",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep6_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:19:24.101695+00:00",
"file_format": "fastq",
"file_size": 849581,
"href": "/sequence-files/IGVFFI5323PYXG/@@download/IGVFFI5323PYXG.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/24693798-e69a-4b4c-8c6b-eab2d7de6c88/IGVFFI5323PYXG.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep6_S12_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1090FUQZ/",
"accession": "IGVFFI1090FUQZ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep5_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:19:14.940468+00:00",
"file_format": "fastq",
"file_size": 4123469,
"href": "/sequence-files/IGVFFI1090FUQZ/@@download/IGVFFI1090FUQZ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/8ed8b0ef-84f2-45bd-aa09-cdea9babd512/IGVFFI1090FUQZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep5_S11_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0722GZHY/",
"accession": "IGVFFI0722GZHY",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep10_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:14:56.871775+00:00",
"file_format": "fastq",
"file_size": 1508027,
"href": "/sequence-files/IGVFFI0722GZHY/@@download/IGVFFI0722GZHY.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/cf142916-b23a-451d-8f98-6deef39c020b/IGVFFI0722GZHY.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep10_S106_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7857WEFR/",
"accession": "IGVFFI7857WEFR",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep3_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:17:47.656091+00:00",
"file_format": "fastq",
"file_size": 3653351,
"href": "/sequence-files/IGVFFI7857WEFR/@@download/IGVFFI7857WEFR.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/adc54733-41ab-40c4-8826-939e912a660a/IGVFFI7857WEFR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep3_S9_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0224JDGO/",
"accession": "IGVFFI0224JDGO",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep11_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:15:33.915150+00:00",
"file_format": "fastq",
"file_size": 1617996,
"href": "/sequence-files/IGVFFI0224JDGO/@@download/IGVFFI0224JDGO.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/2bd7de61-0c78-456f-b891-9618d6c10295/IGVFFI0224JDGO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep11_S107_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8642MAZK/",
"accession": "IGVFFI8642MAZK",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep12_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:16:10.775213+00:00",
"file_format": "fastq",
"file_size": 1570075,
"href": "/sequence-files/IGVFFI8642MAZK/@@download/IGVFFI8642MAZK.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/2e8dad6d-154b-46dc-adfc-742a7758040b/IGVFFI8642MAZK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep12_S108_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8503BWOL/",
"accession": "IGVFFI8503BWOL",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep9_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:21:24.690911+00:00",
"file_format": "fastq",
"file_size": 1463260,
"href": "/sequence-files/IGVFFI8503BWOL/@@download/IGVFFI8503BWOL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/2d4c86f3-fe7c-46b0-9cc7-c8efbb761731/IGVFFI8503BWOL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep9_S105_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8956PDYX/",
"accession": "IGVFFI8956PDYX",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep12_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:16:20.276777+00:00",
"file_format": "fastq",
"file_size": 1463467,
"href": "/sequence-files/IGVFFI8956PDYX/@@download/IGVFFI8956PDYX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/863c855e-9ff0-4b79-aa8d-405c9d57aca0/IGVFFI8956PDYX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep12_S108_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6953LNTC/",
"accession": "IGVFFI6953LNTC",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep2_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:17:10.517690+00:00",
"file_format": "fastq",
"file_size": 3756251,
"href": "/sequence-files/IGVFFI6953LNTC/@@download/IGVFFI6953LNTC.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/f641321a-1dda-48c0-acfd-6665b819fef6/IGVFFI6953LNTC.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep2_S8_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9395HRYY/",
"accession": "IGVFFI9395HRYY",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep4_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:18:19.259817+00:00",
"file_format": "fastq",
"file_size": 874740,
"href": "/sequence-files/IGVFFI9395HRYY/@@download/IGVFFI9395HRYY.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/feb94c2d-5b0a-4056-8470-cec791bb2c66/IGVFFI9395HRYY.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep4_S10_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8041TBBD/",
"accession": "IGVFFI8041TBBD",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep5_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:18:47.064004+00:00",
"file_format": "fastq",
"file_size": 880558,
"href": "/sequence-files/IGVFFI8041TBBD/@@download/IGVFFI8041TBBD.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/ae978db2-23d0-4937-8cb5-1494d45f7ca8/IGVFFI8041TBBD.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep5_S11_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9214AQWH/",
"accession": "IGVFFI9214AQWH",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep1_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:14:28.654235+00:00",
"file_format": "fastq",
"file_size": 883654,
"href": "/sequence-files/IGVFFI9214AQWH/@@download/IGVFFI9214AQWH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/8dfd7313-f799-4c77-8d25-eb02e98cb8c9/IGVFFI9214AQWH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep1_S7_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0452OHDI/",
"accession": "IGVFFI0452OHDI",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep2_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:17:20.148416+00:00",
"file_format": "fastq",
"file_size": 4453591,
"href": "/sequence-files/IGVFFI0452OHDI/@@download/IGVFFI0452OHDI.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/bebd2a96-17f4-4275-a2ed-ee65480ca754/IGVFFI0452OHDI.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep2_S8_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1667HWTQ/",
"accession": "IGVFFI1667HWTQ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep8_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:21:06.140596+00:00",
"file_format": "fastq",
"file_size": 7017316,
"href": "/sequence-files/IGVFFI1667HWTQ/@@download/IGVFFI1667HWTQ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/e5b1b5d6-9c2e-44ad-a2a6-37feca09ad30/IGVFFI1667HWTQ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep8_S104_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4322UEUW/",
"accession": "IGVFFI4322UEUW",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep10_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:15:24.752482+00:00",
"file_format": "fastq",
"file_size": 6750274,
"href": "/sequence-files/IGVFFI4322UEUW/@@download/IGVFFI4322UEUW.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/e19d513c-5277-43dc-abf8-b24d99a9095e/IGVFFI4322UEUW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep10_S106_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7933VRZU/",
"accession": "IGVFFI7933VRZU",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep2_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:16:51.880619+00:00",
"file_format": "fastq",
"file_size": 993695,
"href": "/sequence-files/IGVFFI7933VRZU/@@download/IGVFFI7933VRZU.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/83ef1d5b-dce3-43f2-b6e9-445ccde4eff2/IGVFFI7933VRZU.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep2_S8_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8149LUHI/",
"accession": "IGVFFI8149LUHI",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep1_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:14:47.665609+00:00",
"file_format": "fastq",
"file_size": 4263108,
"href": "/sequence-files/IGVFFI8149LUHI/@@download/IGVFFI8149LUHI.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/09349922-20ae-4266-aa36-2569024cbc80/IGVFFI8149LUHI.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep1_S7_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8053JCMT/",
"accession": "IGVFFI8053JCMT",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep7_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:20:01.298107+00:00",
"file_format": "fastq",
"file_size": 1516215,
"href": "/sequence-files/IGVFFI8053JCMT/@@download/IGVFFI8053JCMT.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/b4d223db-e9c2-4618-9698-45dbbcd85202/IGVFFI8053JCMT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep7_S103_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5644FLWR/",
"accession": "IGVFFI5644FLWR",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep6_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:19:52.118622+00:00",
"file_format": "fastq",
"file_size": 4150804,
"href": "/sequence-files/IGVFFI5644FLWR/@@download/IGVFFI5644FLWR.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/0a3d7206-218a-4010-a9ef-324a6f74182d/IGVFFI5644FLWR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep6_S12_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3696OSXV/",
"accession": "IGVFFI3696OSXV",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep8_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T20:20:38.318761+00:00",
"file_format": "fastq",
"file_size": 1643555,
"href": "/sequence-files/IGVFFI3696OSXV/@@download/IGVFFI3696OSXV.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/529de4cd-c518-44f7-a8e9-077f14d3f2bf/IGVFFI3696OSXV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA-PCRrep8_S104_I1_001.fastq.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS5031MNRR/"
],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"notes": "The readout 2e41e624-f6c7-4f0c-a07e-bc36cefdca39 was removed from this measurement set. This measurement set previously used Variant FlowFISH as a preferred_assay_title, but this enum is now removed. So it has been defaulted to Variant-EFFECTS.",
"preferred_assay_title": "Variant-EFFECTS",
"protocols": [
"https://www.protocols.io/view/flowfish-with-primeflow-36wgq3q4olk5/v1"
],
"release_timestamp": "2023-12-20T23:05:48.305153+00:00",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM5040QPRO/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM5040QPRO",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep1-FFrep3-BinA"
],
"classifications": [
"cell line"
],
"institutional_certificates": [],
"modifications": [
{
"@id": "/crispr-modifications/fc6bc0b3-a064-47d0-b95d-a9af14bb1624/",
"modality": "prime editing",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001253/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:THP-1"
],
"status": "released",
"summary": "THP-1",
"term_name": "THP-1"
}
],
"status": "released",
"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",
"taxa": "Homo sapiens"
}
],
"schema_version": "26",
"status": "released",
"submitted_by": {
"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-05T20:14:19.621860+00:00",
"summary": "CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus",
"targeted_genes": [
{
"@id": "/genes/ENSG00000108179/",
"geneid": "ENSG00000108179",
"name": "peptidylprolyl isomerase F",
"status": "released",
"symbol": "PPIF",
"synonyms": [
"PPIase F",
"peptidylprolyl isomerase F",
"Cyp-D",
"peptidyl-prolyl cis-trans isomerase F, mitochondrial",
"PPIF",
"CyP-M",
"cyclophilin F",
"peptidyl-prolyl cis-trans isomerase, mitochondrial",
"cyclophilin 3",
"cyclophilin D",
"rotamase F",
"mitochondrial cyclophilin",
"CypD",
"CYP3"
]
}
],
"uuid": "eeec16fe-273a-44b0-b8b4-ab4d1ca14101"
}