IGVFDS4761MJPK

1{
2    "@context": "/terms/",
3    "@id": "/measurement-sets/IGVFDS4761MJPK/",
4    "@type": [
5        "MeasurementSet",
6        "FileSet",
7        "Item"
8    ],
9    "accession": "IGVFDS4761MJPK",
10    "aliases": [
11        "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD_AmpliconSequencing"
12    ],
13    "assay_term": {
14        "@id": "/assay-terms/OBI_0003661/",
15        "assay_slims": [
16            "CRISPR screens"
17        ],
18        "status": "released",
19        "term_name": "in vitro CRISPR screen using flow cytometry"
20    },
21    "audit": {
22        "INTERNAL_ACTION": [
23            {
24                "category": "missing publication",
25                "detail": "Measurement set [IGVFDS4761MJPK](/measurement-sets/IGVFDS4761MJPK/) has no `publications`. Released and archived file sets are expected to be associated with a publication.",
26                "level": 30,
27                "level_name": "INTERNAL_ACTION",
28                "name": "audit_file_set_missing_publication",
29                "path": "/measurement-sets/IGVFDS4761MJPK/"
30            },
31            {
32                "category": "missing sequencing kit",
33                "detail": "Measurement set [IGVFDS4761MJPK](/measurement-sets/IGVFDS4761MJPK/) has sequence file(s) [IGVFFI8278HZRQ](/sequence-files/IGVFFI8278HZRQ/), [IGVFFI8811GRPT](/sequence-files/IGVFFI8811GRPT/), [IGVFFI4731IEAH](/sequence-files/IGVFFI4731IEAH/), [IGVFFI2773PIWP](/sequence-files/IGVFFI2773PIWP/), [IGVFFI6361XILS](/sequence-files/IGVFFI6361XILS/), [IGVFFI1857FKXY](/sequence-files/IGVFFI1857FKXY/), [IGVFFI8152NWXX](/sequence-files/IGVFFI8152NWXX/), [IGVFFI5207UATO](/sequence-files/IGVFFI5207UATO/), [IGVFFI1700TUTF](/sequence-files/IGVFFI1700TUTF/), [IGVFFI6477SDQL](/sequence-files/IGVFFI6477SDQL/), [IGVFFI6351GKSW](/sequence-files/IGVFFI6351GKSW/), [IGVFFI8170ERPY](/sequence-files/IGVFFI8170ERPY/), [IGVFFI3437AYHZ](/sequence-files/IGVFFI3437AYHZ/), [IGVFFI6949RZTC](/sequence-files/IGVFFI6949RZTC/), [IGVFFI6364TPNL](/sequence-files/IGVFFI6364TPNL/), [IGVFFI2181VFIV](/sequence-files/IGVFFI2181VFIV/), [IGVFFI0935IOIK](/sequence-files/IGVFFI0935IOIK/), [IGVFFI7652EMVO](/sequence-files/IGVFFI7652EMVO/), [IGVFFI0200FBDB](/sequence-files/IGVFFI0200FBDB/), [IGVFFI5334ABHL](/sequence-files/IGVFFI5334ABHL/), [IGVFFI5463BBPK](/sequence-files/IGVFFI5463BBPK/), [IGVFFI9099LGXP](/sequence-files/IGVFFI9099LGXP/), [IGVFFI4968UFQG](/sequence-files/IGVFFI4968UFQG/), [IGVFFI1204MQWV](/sequence-files/IGVFFI1204MQWV/), [IGVFFI3297DUXB](/sequence-files/IGVFFI3297DUXB/), [IGVFFI1128FFSQ](/sequence-files/IGVFFI1128FFSQ/), [IGVFFI8865QODU](/sequence-files/IGVFFI8865QODU/), [IGVFFI2584FMIB](/sequence-files/IGVFFI2584FMIB/), [IGVFFI7826KZQK](/sequence-files/IGVFFI7826KZQK/), [IGVFFI5619LCDY](/sequence-files/IGVFFI5619LCDY/), [IGVFFI8960XVJF](/sequence-files/IGVFFI8960XVJF/), [IGVFFI6586NUGU](/sequence-files/IGVFFI6586NUGU/), [IGVFFI2718CQTC](/sequence-files/IGVFFI2718CQTC/), [IGVFFI4438CJXK](/sequence-files/IGVFFI4438CJXK/), [IGVFFI1575WKAG](/sequence-files/IGVFFI1575WKAG/), [IGVFFI7154ONDQ](/sequence-files/IGVFFI7154ONDQ/), [IGVFFI8704EXJD](/sequence-files/IGVFFI8704EXJD/), [IGVFFI4206DSWK](/sequence-files/IGVFFI4206DSWK/), [IGVFFI9233PUFR](/sequence-files/IGVFFI9233PUFR/), [IGVFFI2945ILSX](/sequence-files/IGVFFI2945ILSX/), [IGVFFI2540RXLZ](/sequence-files/IGVFFI2540RXLZ/), [IGVFFI0547GPAW](/sequence-files/IGVFFI0547GPAW/), [IGVFFI5383NNEQ](/sequence-files/IGVFFI5383NNEQ/), [IGVFFI3596ZMGS](/sequence-files/IGVFFI3596ZMGS/), [IGVFFI1357MEJI](/sequence-files/IGVFFI1357MEJI/), [IGVFFI0607FHBB](/sequence-files/IGVFFI0607FHBB/), [IGVFFI3283UZLK](/sequence-files/IGVFFI3283UZLK/), [IGVFFI4193QYST](/sequence-files/IGVFFI4193QYST/) which lack specification of a `sequencing_kit`. Sequence files in a file set associated wtih bulk data should specify a sequencing kit.",
34                "level": 30,
35                "level_name": "INTERNAL_ACTION",
36                "name": "audit_inconsistent_sequencing_kit",
37                "path": "/measurement-sets/IGVFDS4761MJPK/"
38            },
39            {
40                "category": "missing sequence specification",
41                "detail": "Measurement set [IGVFDS4761MJPK](/measurement-sets/IGVFDS4761MJPK/) has sequence file(s): [IGVFFI8278HZRQ](/sequence-files/IGVFFI8278HZRQ/), [IGVFFI8811GRPT](/sequence-files/IGVFFI8811GRPT/), [IGVFFI4731IEAH](/sequence-files/IGVFFI4731IEAH/), [IGVFFI2773PIWP](/sequence-files/IGVFFI2773PIWP/), [IGVFFI6361XILS](/sequence-files/IGVFFI6361XILS/), [IGVFFI1857FKXY](/sequence-files/IGVFFI1857FKXY/), [IGVFFI8152NWXX](/sequence-files/IGVFFI8152NWXX/), [IGVFFI5207UATO](/sequence-files/IGVFFI5207UATO/), [IGVFFI1700TUTF](/sequence-files/IGVFFI1700TUTF/), [IGVFFI6477SDQL](/sequence-files/IGVFFI6477SDQL/), [IGVFFI6351GKSW](/sequence-files/IGVFFI6351GKSW/), [IGVFFI8170ERPY](/sequence-files/IGVFFI8170ERPY/), [IGVFFI3437AYHZ](/sequence-files/IGVFFI3437AYHZ/), [IGVFFI6949RZTC](/sequence-files/IGVFFI6949RZTC/), [IGVFFI6364TPNL](/sequence-files/IGVFFI6364TPNL/), [IGVFFI2181VFIV](/sequence-files/IGVFFI2181VFIV/), [IGVFFI0935IOIK](/sequence-files/IGVFFI0935IOIK/), [IGVFFI7652EMVO](/sequence-files/IGVFFI7652EMVO/), [IGVFFI0200FBDB](/sequence-files/IGVFFI0200FBDB/), [IGVFFI5334ABHL](/sequence-files/IGVFFI5334ABHL/), [IGVFFI5463BBPK](/sequence-files/IGVFFI5463BBPK/), [IGVFFI9099LGXP](/sequence-files/IGVFFI9099LGXP/), [IGVFFI4968UFQG](/sequence-files/IGVFFI4968UFQG/), [IGVFFI1204MQWV](/sequence-files/IGVFFI1204MQWV/), [IGVFFI3297DUXB](/sequence-files/IGVFFI3297DUXB/), [IGVFFI1128FFSQ](/sequence-files/IGVFFI1128FFSQ/), [IGVFFI8865QODU](/sequence-files/IGVFFI8865QODU/), [IGVFFI2584FMIB](/sequence-files/IGVFFI2584FMIB/), [IGVFFI7826KZQK](/sequence-files/IGVFFI7826KZQK/), [IGVFFI5619LCDY](/sequence-files/IGVFFI5619LCDY/), [IGVFFI8960XVJF](/sequence-files/IGVFFI8960XVJF/), [IGVFFI6586NUGU](/sequence-files/IGVFFI6586NUGU/), [IGVFFI2718CQTC](/sequence-files/IGVFFI2718CQTC/), [IGVFFI4438CJXK](/sequence-files/IGVFFI4438CJXK/), [IGVFFI1575WKAG](/sequence-files/IGVFFI1575WKAG/), [IGVFFI7154ONDQ](/sequence-files/IGVFFI7154ONDQ/), [IGVFFI8704EXJD](/sequence-files/IGVFFI8704EXJD/), [IGVFFI4206DSWK](/sequence-files/IGVFFI4206DSWK/), [IGVFFI9233PUFR](/sequence-files/IGVFFI9233PUFR/), [IGVFFI2945ILSX](/sequence-files/IGVFFI2945ILSX/), [IGVFFI2540RXLZ](/sequence-files/IGVFFI2540RXLZ/), [IGVFFI0547GPAW](/sequence-files/IGVFFI0547GPAW/), [IGVFFI5383NNEQ](/sequence-files/IGVFFI5383NNEQ/), [IGVFFI3596ZMGS](/sequence-files/IGVFFI3596ZMGS/), [IGVFFI1357MEJI](/sequence-files/IGVFFI1357MEJI/), [IGVFFI0607FHBB](/sequence-files/IGVFFI0607FHBB/), [IGVFFI3283UZLK](/sequence-files/IGVFFI3283UZLK/), [IGVFFI4193QYST](/sequence-files/IGVFFI4193QYST/) 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.",
42                "level": 30,
43                "level_name": "INTERNAL_ACTION",
44                "name": "audit_missing_seqspec",
45                "path": "/measurement-sets/IGVFDS4761MJPK/"
46            },
47            {
48                "category": "mismatched status",
49                "detail": "Released in vitro system [IGVFSM4588UXMN](/in-vitro-systems/IGVFSM4588UXMN/) has in progress subobject construct library set [IGVFDS6982DESN](/construct-library-sets/IGVFDS6982DESN/).",
50                "level": 30,
51                "level_name": "INTERNAL_ACTION",
52                "name": "audit_item_status",
53                "path": "/in-vitro-systems/IGVFSM4588UXMN/"
54            },
55            {
56                "category": "missing publication",
57                "detail": "In vitro system [IGVFSM4588UXMN](/in-vitro-systems/IGVFSM4588UXMN/) has no `publications`. Released and archived samples are expected to be associated with a publication.",
58                "level": 30,
59                "level_name": "INTERNAL_ACTION",
60                "name": "audit_sample_missing_publication",
61                "path": "/in-vitro-systems/IGVFSM4588UXMN/"
62            }
63        ],
64        "WARNING": [
65            {
66                "category": "missing auxiliary set",
67                "detail": "Measurement set [IGVFDS4761MJPK](/measurement-sets/IGVFDS4761MJPK/) has no cell sorting `auxiliary_sets`. CRISPR-based measurement sets that utilize flow cytometry are expected to link to a cell sorting auxiliary set.",
68                "level": 40,
69                "level_name": "WARNING",
70                "name": "audit_missing_auxiliary_set",
71                "path": "/measurement-sets/IGVFDS4761MJPK/"
72            }
73        ]
74    },
75    "award": {
76        "@id": "/awards/HG011972/",
77        "component": "functional characterization",
78        "contact_pi": {
79            "@id": "/users/6c75dbfa-635e-4a7a-8ec8-9e51e9c380a4/",
80            "title": "Jesse Engreitz"
81        },
82        "title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
83    },
84    "construct_library_sets": [
85        {
86            "@id": "/construct-library-sets/IGVFDS6982DESN/",
87            "accession": "IGVFDS6982DESN",
88            "file_set_type": "guide library",
89            "status": "in progress",
90            "summary": "guide (sgRNA) library targeting sequence variants in a genomic locus"
91        }
92    ],
93    "control_file_sets": [
94        {
95            "@id": "/measurement-sets/IGVFDS5864UGFT/",
96            "accession": "IGVFDS5864UGFT",
97            "aliases": [
98                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-THP1-PE2_Exp2_NegControl_AmpliconSequencing"
99            ],
100            "status": "released"
101        }
102    ],
103    "control_for": [],
104    "creation_timestamp": "2023-11-30T22:49:55.743680+00:00",
105    "data_use_limitation_summaries": [
106        "no certificate"
107    ],
108    "donors": [
109        {
110            "@id": "/human-donors/IGVFDO7359LVPI/",
111            "accession": "IGVFDO7359LVPI",
112            "aliases": [
113                "igvf:donor_of_THP1"
114            ],
115            "sex": "male",
116            "status": "released",
117            "taxa": "Homo sapiens"
118        }
119    ],
120    "externally_hosted": false,
121    "file_set_type": "experimental data",
122    "files": [
123        {
124            "@id": "/sequence-files/IGVFFI8278HZRQ/",
125            "accession": "IGVFFI8278HZRQ",
126            "aliases": [
127                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep2_R2"
128            ],
129            "content_type": "reads",
130            "controlled_access": false,
131            "creation_timestamp": "2023-12-05T21:57:17.278535+00:00",
132            "file_format": "fastq",
133            "file_size": 5041410,
134            "href": "/sequence-files/IGVFFI8278HZRQ/@@download/IGVFFI8278HZRQ.fastq.gz",
135            "md5sum": "9f1669063148368efef4fe0f2b20f8d0",
136            "s3_uri": "s3://igvf-files/2023/12/05/aba4b3ef-4dfa-4169-9480-3d42eab2bd09/IGVFFI8278HZRQ.fastq.gz",
137            "sequencing_platform": {
138                "@id": "/platform-terms/EFO_0008566/",
139                "status": "released",
140                "term_name": "Illumina NextSeq 550"
141            },
142            "status": "released",
143            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep2_S230_R2_001.fastq.gz",
144            "upload_status": "validated"
145        },
146        {
147            "@id": "/sequence-files/IGVFFI8811GRPT/",
148            "accession": "IGVFFI8811GRPT",
149            "aliases": [
150                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep2_I2"
151            ],
152            "content_type": "reads",
153            "controlled_access": false,
154            "creation_timestamp": "2023-12-05T21:56:59.614903+00:00",
155            "file_format": "fastq",
156            "file_size": 1223694,
157            "href": "/sequence-files/IGVFFI8811GRPT/@@download/IGVFFI8811GRPT.fastq.gz",
158            "md5sum": "8b42821491a94b477873fb9ec3111e9a",
159            "s3_uri": "s3://igvf-files/2023/12/05/f28b611c-e852-4c16-90b0-33d5d36531b0/IGVFFI8811GRPT.fastq.gz",
160            "sequencing_platform": {
161                "@id": "/platform-terms/EFO_0008566/",
162                "status": "released",
163                "term_name": "Illumina NextSeq 550"
164            },
165            "status": "released",
166            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep2_S230_I2_001.fastq.gz",
167            "upload_status": "validated"
168        },
169        {
170            "@id": "/sequence-files/IGVFFI4731IEAH/",
171            "accession": "IGVFFI4731IEAH",
172            "aliases": [
173                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep11_R1"
174            ],
175            "content_type": "reads",
176            "controlled_access": false,
177            "creation_timestamp": "2023-12-05T21:55:54.448197+00:00",
178            "file_format": "fastq",
179            "file_size": 4316102,
180            "href": "/sequence-files/IGVFFI4731IEAH/@@download/IGVFFI4731IEAH.fastq.gz",
181            "md5sum": "3de383e220a8707a744ee9f8c94970fc",
182            "s3_uri": "s3://igvf-files/2023/12/05/e403677e-8c7c-4236-90ee-190d4f36e591/IGVFFI4731IEAH.fastq.gz",
183            "sequencing_platform": {
184                "@id": "/platform-terms/EFO_0008566/",
185                "status": "released",
186                "term_name": "Illumina NextSeq 550"
187            },
188            "status": "released",
189            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep11_S239_R1_001.fastq.gz",
190            "upload_status": "validated"
191        },
192        {
193            "@id": "/sequence-files/IGVFFI2773PIWP/",
194            "accession": "IGVFFI2773PIWP",
195            "aliases": [
196                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep8_R1"
197            ],
198            "content_type": "reads",
199            "controlled_access": false,
200            "creation_timestamp": "2023-12-05T22:00:39.539119+00:00",
201            "file_format": "fastq",
202            "file_size": 4448071,
203            "href": "/sequence-files/IGVFFI2773PIWP/@@download/IGVFFI2773PIWP.fastq.gz",
204            "md5sum": "c298145e2f3d945327ed0af0dc6940d0",
205            "s3_uri": "s3://igvf-files/2023/12/05/524c91c1-9b1c-4719-ad73-d535ae3a0cc8/IGVFFI2773PIWP.fastq.gz",
206            "sequencing_platform": {
207                "@id": "/platform-terms/EFO_0008566/",
208                "status": "released",
209                "term_name": "Illumina NextSeq 550"
210            },
211            "status": "released",
212            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep8_S236_R1_001.fastq.gz",
213            "upload_status": "validated"
214        },
215        {
216            "@id": "/sequence-files/IGVFFI6361XILS/",
217            "accession": "IGVFFI6361XILS",
218            "aliases": [
219                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep5_I1"
220            ],
221            "content_type": "reads",
222            "controlled_access": false,
223            "creation_timestamp": "2023-12-05T21:58:36.181675+00:00",
224            "file_format": "fastq",
225            "file_size": 1524858,
226            "href": "/sequence-files/IGVFFI6361XILS/@@download/IGVFFI6361XILS.fastq.gz",
227            "md5sum": "45186d1cb30bbd90489634c7f131f042",
228            "s3_uri": "s3://igvf-files/2023/12/05/a9a2c295-c852-4226-b062-3f30851087b7/IGVFFI6361XILS.fastq.gz",
229            "sequencing_platform": {
230                "@id": "/platform-terms/EFO_0008566/",
231                "status": "released",
232                "term_name": "Illumina NextSeq 550"
233            },
234            "status": "released",
235            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep5_S233_I1_001.fastq.gz",
236            "upload_status": "validated"
237        },
238        {
239            "@id": "/sequence-files/IGVFFI1857FKXY/",
240            "accession": "IGVFFI1857FKXY",
241            "aliases": [
242                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep7_R2"
243            ],
244            "content_type": "reads",
245            "controlled_access": false,
246            "creation_timestamp": "2023-12-05T22:00:13.229778+00:00",
247            "file_format": "fastq",
248            "file_size": 5264383,
249            "href": "/sequence-files/IGVFFI1857FKXY/@@download/IGVFFI1857FKXY.fastq.gz",
250            "md5sum": "711260582cfede72d5fd0001fe240e68",
251            "s3_uri": "s3://igvf-files/2023/12/05/18495c35-4ab5-4bf8-a9fa-f7f670b57c03/IGVFFI1857FKXY.fastq.gz",
252            "sequencing_platform": {
253                "@id": "/platform-terms/EFO_0008566/",
254                "status": "released",
255                "term_name": "Illumina NextSeq 550"
256            },
257            "status": "released",
258            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep7_S235_R2_001.fastq.gz",
259            "upload_status": "validated"
260        },
261        {
262            "@id": "/sequence-files/IGVFFI8152NWXX/",
263            "accession": "IGVFFI8152NWXX",
264            "aliases": [
265                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep9_I2"
266            ],
267            "content_type": "reads",
268            "controlled_access": false,
269            "creation_timestamp": "2023-12-05T22:01:06.176116+00:00",
270            "file_format": "fastq",
271            "file_size": 1277801,
272            "href": "/sequence-files/IGVFFI8152NWXX/@@download/IGVFFI8152NWXX.fastq.gz",
273            "md5sum": "74d4164f3283e0f9f3d2c0d2f7652a26",
274            "s3_uri": "s3://igvf-files/2023/12/05/4d5f6499-e1c1-4a51-964b-5c36ec666948/IGVFFI8152NWXX.fastq.gz",
275            "sequencing_platform": {
276                "@id": "/platform-terms/EFO_0008566/",
277                "status": "released",
278                "term_name": "Illumina NextSeq 550"
279            },
280            "status": "released",
281            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep9_S237_I2_001.fastq.gz",
282            "upload_status": "validated"
283        },
284        {
285            "@id": "/sequence-files/IGVFFI5207UATO/",
286            "accession": "IGVFFI5207UATO",
287            "aliases": [
288                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep12_R2"
289            ],
290            "content_type": "reads",
291            "controlled_access": false,
292            "creation_timestamp": "2023-12-05T21:56:42.089612+00:00",
293            "file_format": "fastq",
294            "file_size": 4708946,
295            "href": "/sequence-files/IGVFFI5207UATO/@@download/IGVFFI5207UATO.fastq.gz",
296            "md5sum": "6669b6bb17fa8b9dbcd0004a840b4ea0",
297            "s3_uri": "s3://igvf-files/2023/12/05/9fa309f2-a1f2-430a-93ba-4bb91ea240d0/IGVFFI5207UATO.fastq.gz",
298            "sequencing_platform": {
299                "@id": "/platform-terms/EFO_0008566/",
300                "status": "released",
301                "term_name": "Illumina NextSeq 550"
302            },
303            "status": "released",
304            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep12_S240_R2_001.fastq.gz",
305            "upload_status": "validated"
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1207            "aliases": [
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1221                "term_name": "Illumina NextSeq 550"
1222            },
1223            "status": "released",
1224            "submitted_file_name": "230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD-PCRrep8_S236_I1_001.fastq.gz",
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1226        }
1227    ],
1228    "input_for": [
1229        "/analysis-sets/IGVFDS3423PSID/"
1230    ],
1231    "lab": {
1232        "@id": "/labs/jesse-engreitz/",
1233        "title": "Jesse Engreitz, Stanford"
1234    },
1235    "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.",
1236    "preferred_assay_title": "Variant-EFFECTS",
1237    "protocols": [
1238        "https://www.protocols.io/view/flowfish-with-primeflow-36wgq3q4olk5/v1"
1239    ],
1240    "release_timestamp": "2023-12-20T23:06:20.645277+00:00",
1241    "samples": [
1242        {
1243            "@id": "/in-vitro-systems/IGVFSM4588UXMN/",
1244            "@type": [
1245                "InVitroSystem",
1246                "Biosample",
1247                "Sample",
1248                "Item"
1249            ],
1250            "accession": "IGVFSM4588UXMN",
1251            "aliases": [
1252                "jesse-engreitz:230807S022-THP1-P153-Amp_PPIF_promoter-BioRep2-FFrep1-BinD"
1253            ],
1254            "classifications": [
1255                "cell line"
1256            ],
1257            "institutional_certificates": [],
1258            "modifications": [
1259                {
1260                    "@id": "/crispr-modifications/fc6bc0b3-a064-47d0-b95d-a9af14bb1624/",
1261                    "modality": "prime editing",
1262                    "status": "released"
1263                }
1264            ],
1265            "sample_terms": [
1266                {
1267                    "@id": "/sample-terms/EFO_0001253/",
1268                    "@type": [
1269                        "SampleTerm",
1270                        "OntologyTerm",
1271                        "Item"
1272                    ],
1273                    "aliases": [
1274                        "igvf:THP-1"
1275                    ],
1276                    "status": "released",
1277                    "summary": "THP-1",
1278                    "term_name": "THP-1"
1279                }
1280            ],
1281            "status": "released",
1282            "summary": "Homo sapiens (male) THP-1 cell line (sorting details: FACS bin for 76-100% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transduced (lentivirus) with a guide library",
1283            "taxa": "Homo sapiens"
1284        }
1285    ],
1286    "schema_version": "26",
1287    "status": "released",
1288    "submitted_by": {
1289        "@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
1290        "title": "Michael Montgomery"
1291    },
1292    "submitted_files_timestamp": "2023-12-05T21:54:26.782872+00:00",
1293    "summary": "CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus",
1294    "targeted_genes": [
1295        {
1296            "@id": "/genes/ENSG00000108179/",
1297            "geneid": "ENSG00000108179",
1298            "name": "peptidylprolyl isomerase F",
1299            "status": "released",
1300            "symbol": "PPIF",
1301            "synonyms": [
1302                "PPIase F",
1303                "peptidylprolyl isomerase F",
1304                "Cyp-D",
1305                "peptidyl-prolyl cis-trans isomerase F, mitochondrial",
1306                "PPIF",
1307                "CyP-M",
1308                "cyclophilin F",
1309                "peptidyl-prolyl cis-trans isomerase, mitochondrial",
1310                "cyclophilin 3",
1311                "cyclophilin D",
1312                "rotamase F",
1313                "mitochondrial cyclophilin",
1314                "CypD",
1315                "CYP3"
1316            ]
1317        }
1318    ],
1319    "uuid": "3c48f18f-a00d-4395-8b1e-e6e9dd89b900"
1320}