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PMC:7267510 / 53272-56485 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T307 22-33 Body_part denotes oral cavity http://purl.org/sig/ont/fma/fma20292
T308 271-275 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T309 589-594 Body_part denotes cheek http://purl.org/sig/ont/fma/fma46476
T310 623-637 Body_part denotes alveolar ridge http://purl.org/sig/ont/fma/fma313923
T311 650-664 Body_part denotes alveolar ridge http://purl.org/sig/ont/fma/fma313923
T312 797-811 Body_part denotes alveolar ridge http://purl.org/sig/ont/fma/fma313923
T313 994-998 Body_part denotes neck http://purl.org/sig/ont/fma/fma7155
T314 1029-1034 Body_part denotes thigh http://purl.org/sig/ont/fma/fma24967
T315 1513-1517 Body_part denotes face http://purl.org/sig/ont/fma/fma24728
T316 1853-1857 Body_part denotes face http://purl.org/sig/ont/fma/fma24728
T317 3070-3080 Body_part denotes lymph node http://purl.org/sig/ont/fma/fma5034

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T297 22-33 Body_part denotes oral cavity http://purl.obolibrary.org/obo/UBERON_0000167
T298 589-594 Body_part denotes cheek http://purl.obolibrary.org/obo/UBERON_0001567
T299 623-637 Body_part denotes alveolar ridge http://purl.obolibrary.org/obo/UBERON_0004103
T300 650-664 Body_part denotes alveolar ridge http://purl.obolibrary.org/obo/UBERON_0004103
T301 797-811 Body_part denotes alveolar ridge http://purl.obolibrary.org/obo/UBERON_0004103
T302 994-998 Body_part denotes neck http://purl.obolibrary.org/obo/UBERON_0000974
T303 1513-1517 Body_part denotes face http://purl.obolibrary.org/obo/UBERON_0001456
T304 1853-1857 Body_part denotes face http://purl.obolibrary.org/obo/UBERON_0001456
T305 2899-2903 Body_part denotes tube http://purl.obolibrary.org/obo/UBERON_0000025
T306 2923-2927 Body_part denotes tube http://purl.obolibrary.org/obo/UBERON_0000025
T307 3070-3080 Body_part denotes lymph node http://purl.obolibrary.org/obo/UBERON_0000029
T308 3070-3075 Body_part denotes lymph http://purl.obolibrary.org/obo/UBERON_0002391
T309 3139-3148 Body_part denotes extension http://purl.obolibrary.org/obo/UBERON_2000106

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T400 22-40 Disease denotes oral cavity cancer http://purl.obolibrary.org/obo/MONDO_0005515|http://purl.obolibrary.org/obo/MONDO_0044925
T402 34-40 Disease denotes cancer http://purl.obolibrary.org/obo/MONDO_0004992
T403 262-285 Disease denotes squamous cell carcinoma http://purl.obolibrary.org/obo/MONDO_0005096
T404 276-285 Disease denotes carcinoma http://purl.obolibrary.org/obo/MONDO_0004993
T405 317-338 Disease denotes myocardial infarction http://purl.obolibrary.org/obo/MONDO_0005068
T406 1690-1698 Disease denotes COVID‐19 http://purl.obolibrary.org/obo/MONDO_0100096
T407 3101-3107 Disease denotes cancer http://purl.obolibrary.org/obo/MONDO_0004992

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T646 22-33 http://purl.obolibrary.org/obo/UBERON_0000167 denotes oral cavity
T647 22-33 http://www.ebi.ac.uk/efo/EFO_0000825 denotes oral cavity
T648 75-76 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T649 108-111 http://purl.obolibrary.org/obo/CLO_0001608 denotes a 7
T650 129-130 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T651 211-212 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T652 271-275 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T653 539-540 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T654 547-556 http://purl.obolibrary.org/obo/UBERON_0001353 denotes posterior
T655 768-772 http://purl.obolibrary.org/obo/UBERON_0002481 denotes bone
T656 813-814 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T657 994-998 http://www.ebi.ac.uk/efo/EFO_0000967 denotes neck
T658 1029-1034 http://www.ebi.ac.uk/efo/EFO_0001943 denotes thigh
T659 1335-1340 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T660 1348-1355 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T661 1360-1363 http://purl.obolibrary.org/obo/CLO_0001577 denotes a 3
T662 1385-1386 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T663 1394-1402 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test was
T664 1513-1517 http://purl.obolibrary.org/obo/UBERON_0001456 denotes face
T665 1636-1640 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T666 1688-1689 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T667 1853-1857 http://purl.obolibrary.org/obo/UBERON_0001456 denotes face
T668 1974-1975 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T669 2064-2069 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T670 2157-2158 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T671 2165-2169 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T672 2205-2206 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T673 2213-2217 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T674 2299-2304 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T675 2362-2370 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test was
T676 2378-2379 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T677 2500-2501 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T678 2592-2598 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T679 2728-2734 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T680 2877-2878 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T681 2899-2903 http://purl.obolibrary.org/obo/UBERON_0000025 denotes tube
T682 2908-2909 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T683 2923-2927 http://purl.obolibrary.org/obo/UBERON_0000025 denotes tube
T684 2933-2934 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T685 3063-3066 http://purl.obolibrary.org/obo/CLO_0001618 denotes a 9
T686 3063-3066 http://purl.obolibrary.org/obo/CLO_0001619 denotes a 9
T687 3063-3066 http://purl.obolibrary.org/obo/CLO_0001620 denotes a 9
T688 3070-3080 http://purl.obolibrary.org/obo/UBERON_0000029 denotes lymph node
T689 3161-3162 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T83249 687-693 Chemical denotes iodine http://purl.obolibrary.org/obo/CHEBI_24859
T97373 700-714 Chemical denotes contrast media http://purl.obolibrary.org/obo/CHEBI_37338
T68927 719-722 Chemical denotes PET http://purl.obolibrary.org/obo/CHEBI_131701
T72705 856-859 Chemical denotes PET http://purl.obolibrary.org/obo/CHEBI_131701

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T32 453-460 http://purl.obolibrary.org/obo/GO_0071626 denotes chewing

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T191 34-40 Phenotype denotes cancer http://purl.obolibrary.org/obo/HP_0002664
T192 262-285 Phenotype denotes squamous cell carcinoma http://purl.obolibrary.org/obo/HP_0002860
T193 317-338 Phenotype denotes myocardial infarction http://purl.obolibrary.org/obo/HP_0001658
T194 670-677 Phenotype denotes trismus http://purl.obolibrary.org/obo/HP_0000211
T195 3101-3107 Phenotype denotes cancer http://purl.obolibrary.org/obo/HP_0002664

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T413 0-12 Sentence denotes 4.3 Case 3:
T414 13-74 Sentence denotes Advanced oral cavity cancer with false‐positiveCOVID‐19RT‐PCR
T415 75-210 Sentence denotes A 60‐year‐old man presented with a 7‐month history of a right‐sided oral lesion, progressive over time, which was increasingly painful.
T416 211-286 Sentence denotes A biopsy showed invasive moderately differentiated squamous cell carcinoma.
T417 287-370 Sentence denotes Past medical history included myocardial infarction and angioplasty 3 years before.
T418 371-403 Sentence denotes His only medication was aspirin.
T419 404-508 Sentence denotes Patient had smoked cigarettes for 25 years, used chewing tobacco, and drank four drinks of liquor daily.
T420 509-678 Sentence denotes Physical examination revealed a right posterior buccal lesion, bulging into the cheek and extending from inferior alveolar ridge to superior alveolar ridge with trismus.
T421 679-812 Sentence denotes CT with iodine‐based contrast media and PET‐CT demonstrated the oral lesion with limited bone erosion at the superior alveolar ridge.
T422 813-863 Sentence denotes A 1‐cm round level 1B node was positive on PET‐CT.
T423 864-1060 Sentence denotes The patient was scheduled for tracheostomy, full‐thickness buccal resection, marginal mandibulectomy, partial maxillectomy, right neck dissection, and anterolateral thigh free flap reconstruction.
T424 1061-1155 Sentence denotes Committee review classified surgery as urgent and without equivalent nonsurgical alternatives.
T425 1156-1223 Sentence denotes He had one negative COVID‐19RT‐PCR performed 3 days before surgery.
T426 1224-1341 Sentence denotes Shortly before surgery our policy changed to require that all urgent mucosal surgeries have two COVID‐19RT‐PCR tests.
T427 1342-1457 Sentence denotes Since testing had a 3‐day turnaround time, a second test was sent on the morning of surgery, but surgery proceeded.
T428 1458-1490 Sentence denotes The operation was uncomplicated.
T429 1491-1537 Sentence denotes Staff wore N95 masks, face shields, and gowns.
T430 1538-1704 Sentence denotes His postoperative course was typical, but on postoperative day 3, his preoperative COVID‐19RT‐PCR test resulted positive and the patient was moved to a COVID‐19 ward.
T431 1705-1736 Sentence denotes The patient never had symptoms.
T432 1737-1896 Sentence denotes Significant controversy arose because residents and nurses had been caring for his tracheostomy using N95 masks and face shields, but not always with full PPE.
T433 1897-1999 Sentence denotes The surgeons involved had to defend the ethics of proceeding to surgery with a pending COVID‐19RT‐PCR.
T434 2000-2108 Sentence denotes All future mucosal cases were subsequently required to have two tests with results completed before surgery.
T435 2109-2275 Sentence denotes Fortunately, our facility concurrently acquired a rapid test with two‐hour turnaround time, and a third test performed on postoperative day 4 which returned negative.
T436 2276-2395 Sentence denotes Given the two negative tests, and absence of symptoms, it was decided that the second test was likely a false positive.
T437 2396-2465 Sentence denotes The patient spent only one night on the designated coronavirus floor.
T438 2466-2631 Sentence denotes One member of the operative team, a “scrub” technician who entered the procedure briefly, later became mildly symptomatic and tested positive for coronavirus RT‐PCR.
T439 2632-2744 Sentence denotes Other members of the surgical team and nurses and house staff performing postoperative care all tested negative.
T440 2745-2816 Sentence denotes The origin of the exposure of our technician is difficult to determine.
T441 2817-2974 Sentence denotes The patient was discharged home on postoperative day 9 with a nasogastric feeding tube and a tracheostomy tube with a plan to remove both soon in the office.
T442 2975-3213 Sentence denotes Final pathology revealed negative margins, perineural invasion at the primary site, and a 9‐mm lymph node grossly involved by cancer at level 1B with extracapsular extension, leading to a recommendation for chemoradiation postoperatively.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
762 34-40 Disease denotes cancer MESH:D009369
763 46-65 Disease denotes false‐positiveCOVID MESH:D017541
769 404-411 Species denotes Patient Tax:9606
770 461-468 Species denotes tobacco Tax:4097
771 395-402 Chemical denotes aspirin MESH:D001241
772 262-285 Disease denotes squamous cell carcinoma MESH:D002294
773 317-338 Disease denotes myocardial infarction MESH:D009203
775 687-714 Chemical denotes iodine‐based contrast media
778 868-875 Species denotes patient Tax:9606
779 1176-1181 Disease denotes COVID MESH:C000657245
785 1667-1674 Species denotes patient Tax:9606
786 1709-1716 Species denotes patient Tax:9606
787 1320-1325 Disease denotes COVID MESH:C000657245
788 1621-1626 Disease denotes COVID MESH:C000657245
789 1690-1698 Disease denotes COVID‐19 MESH:C000657245
793 2400-2407 Species denotes patient Tax:9606
794 2447-2458 Species denotes coronavirus Tax:11118
795 1984-1989 Disease denotes COVID MESH:C000657245
797 2612-2623 Species denotes coronavirus Tax:11118
801 2821-2828 Species denotes patient Tax:9606
802 2910-2927 Disease denotes tracheostomy tube MESH:D005184
803 3101-3107 Disease denotes cancer MESH:D009369