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PMC:7402624 / 64109-65577 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T521 131-139 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T522 431-440 Body_part denotes chemokine http://purl.org/sig/ont/fma/fma241981
T523 724-732 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T524 1313-1322 Body_part denotes chemokine http://purl.org/sig/ont/fma/fma241981

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1986 59-66 Species denotes patient Tax:9606
1987 231-242 Chemical denotes FACS buffer
1988 1130-1133 Chemical denotes PFA
1989 1184-1187 Chemical denotes PFA
1990 1279-1282 Chemical denotes PBS MESH:D007854
1991 1385-1404 Chemical denotes BD Brilliant Buffer

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T421 231-235 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T422 361-365 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T423 654-658 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T424 774-778 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T425 1232-1234 Disease denotes BD http://purl.obolibrary.org/obo/MONDO_0007191
T426 1364-1368 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T427 1385-1387 Disease denotes BD http://purl.obolibrary.org/obo/MONDO_0007191
T428 1406-1408 Disease denotes BD http://purl.obolibrary.org/obo/MONDO_0007191

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T953 317-319 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T954 346-347 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T955 617-618 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T956 627-629 http://purl.obolibrary.org/obo/CLO_0053799 denotes 45
T957 1014-1017 http://purl.obolibrary.org/obo/CLO_0001387 denotes 4°C

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T83633 95-101 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T45213 124-126 Chemical denotes S8 http://purl.obolibrary.org/obo/CHEBI_29385
T6104 236-242 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T38115 366-372 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T13410 659-665 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T22243 779-785 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T74159 882-888 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T86249 1130-1133 Chemical denotes PFA http://purl.obolibrary.org/obo/CHEBI_53371|http://purl.obolibrary.org/obo/CHEBI_60594
T30642 1184-1187 Chemical denotes PFA http://purl.obolibrary.org/obo/CHEBI_53371|http://purl.obolibrary.org/obo/CHEBI_60594
T40902 1369-1375 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T380 0-77 Sentence denotes Approximately 1-5×106 freshly isolated PBMCs were used per patient per stain.
T381 78-158 Sentence denotes See table S7 for buffer information and table S8 for antibody panel information.
T382 159-280 Sentence denotes PBMCs were stained with live/dead mix (100 μl, 10 min, RT), washed with FACS buffer, and spun down (1500 rpm, 5 min, RT).
T383 281-395 Sentence denotes PBMCs were incubated with 100 μl of Fc block (RT, 10 min) before a second wash (FACS buffer, 1500 rpm, 5 min, RT).
T384 396-497 Sentence denotes Pellet was resuspended in 25 μl of chemokine receptor staining mix, and incubated at 37°C for 20 min.
T385 498-634 Sentence denotes Following incubation, 25 μl of surface receptor staining mix was directly added and the PBMCs were incubated at RT for a further 45 min.
T386 635-808 Sentence denotes PBMCs were washed (FACS buffer, 1500 rpm, 5 min, RT) and stained with 50 μl of secondary antibody mix for 20 min at RT, then washed again (FACS buffer, 1500 rpm, 5 min, RT).
T387 809-950 Sentence denotes Samples were fixed and permeabilized by incubating in 100 μl of Fix/Perm buffer (RT, 30 min) and washed in Perm Buffer (1800 rpm, 5 min, RT).
T388 951-1018 Sentence denotes PBMCs were stained with 50μl of intracellular mix overnight at 4°C.
T389 1019-1134 Sentence denotes The following morning, samples were washed (Perm Buffer, 1800 rpm, 5 min, RT) and further fixed in 50 μl of 4% PFA.
T390 1135-1248 Sentence denotes Prior to acquisition, samples were diluted to 1% PFA and 10,000 counting beads added per sample (BD, Cat#335925).
T391 1249-1283 Sentence denotes Live/dead mix was prepared in PBS.
T392 1284-1422 Sentence denotes For the surface receptor and chemokine staining mix, antibodies were diluted in FACS buffer with 50% BD Brilliant Buffer (BD, Cat#566349).
T393 1423-1468 Sentence denotes Intracellular mix was diluted in Perm Buffer.