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PMC:7402624 / 64080-65577 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T520 0-8 Body_part denotes Antibody http://purl.org/sig/ont/fma/fma62871
T521 160-168 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T522 460-469 Body_part denotes chemokine http://purl.org/sig/ont/fma/fma241981
T523 753-761 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T524 1342-1351 Body_part denotes chemokine http://purl.org/sig/ont/fma/fma241981

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1986 88-95 Species denotes patient Tax:9606
1987 260-271 Chemical denotes FACS buffer
1988 1159-1162 Chemical denotes PFA
1989 1213-1216 Chemical denotes PFA
1990 1308-1311 Chemical denotes PBS MESH:D007854
1991 1414-1433 Chemical denotes BD Brilliant Buffer

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T421 260-264 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T422 390-394 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T423 683-687 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T424 803-807 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T425 1261-1263 Disease denotes BD http://purl.obolibrary.org/obo/MONDO_0007191
T426 1393-1397 Disease denotes FACS http://purl.obolibrary.org/obo/MONDO_0018262
T427 1414-1416 Disease denotes BD http://purl.obolibrary.org/obo/MONDO_0007191
T428 1435-1437 Disease denotes BD http://purl.obolibrary.org/obo/MONDO_0007191

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T953 346-348 http://purl.obolibrary.org/obo/CLO_0052676 denotes Fc
T954 375-376 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T955 646-647 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T956 656-658 http://purl.obolibrary.org/obo/CLO_0053799 denotes 45
T957 1043-1046 http://purl.obolibrary.org/obo/CLO_0001387 denotes 4°C

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T83633 124-130 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T45213 153-155 Chemical denotes S8 http://purl.obolibrary.org/obo/CHEBI_29385
T6104 265-271 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T38115 395-401 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T13410 688-694 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T22243 808-814 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T74159 911-917 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T86249 1159-1162 Chemical denotes PFA http://purl.obolibrary.org/obo/CHEBI_53371|http://purl.obolibrary.org/obo/CHEBI_60594
T30642 1213-1216 Chemical denotes PFA http://purl.obolibrary.org/obo/CHEBI_53371|http://purl.obolibrary.org/obo/CHEBI_60594
T40902 1398-1404 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T379 0-28 Sentence denotes Antibody panels and staining
T380 29-106 Sentence denotes Approximately 1-5×106 freshly isolated PBMCs were used per patient per stain.
T381 107-187 Sentence denotes See table S7 for buffer information and table S8 for antibody panel information.
T382 188-309 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 310-424 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 425-526 Sentence denotes Pellet was resuspended in 25 μl of chemokine receptor staining mix, and incubated at 37°C for 20 min.
T385 527-663 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 664-837 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 838-979 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 980-1047 Sentence denotes PBMCs were stained with 50μl of intracellular mix overnight at 4°C.
T389 1048-1163 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 1164-1277 Sentence denotes Prior to acquisition, samples were diluted to 1% PFA and 10,000 counting beads added per sample (BD, Cat#335925).
T391 1278-1312 Sentence denotes Live/dead mix was prepared in PBS.
T392 1313-1451 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 1452-1497 Sentence denotes Intracellular mix was diluted in Perm Buffer.