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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 351-359 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T2 378-381 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T3 645-653 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T4 743-751 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T5 786-794 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T6 830-836 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 0-8 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T2 232-240 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T3 310-318 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T4 576-584 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T5 775-784 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T6 819-827 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T7 1545-1555 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T8 1624-1634 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T9 1677-1686 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T10 1840-1848 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T11 1900-1908 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T12 1911-1921 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T1 383-390 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T2 459-460 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T3 993-999 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T4 1027-1029 http://purl.obolibrary.org/obo/CLO_0053794 denotes 41
T5 1104-1110 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T6 1145-1147 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T7 1167-1173 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1 0-10 Species denotes SARS-CoV-2 Tax:2697049
3 232-242 Species denotes SARS-CoV-2 Tax:2697049
9 310-320 Species denotes SARS-CoV-2 Tax:2697049
10 576-586 Species denotes SARS-CoV-2 Tax:2697049
11 819-829 Species denotes SARS-CoV-2 Tax:2697049
12 361-381 Disease denotes Abbott ARCHITECT IgG MESH:D017099
13 775-784 Disease denotes infection MESH:D007239
20 1006-1013 Species denotes persons Tax:9606
21 1455-1462 Species denotes persons Tax:9606
22 1840-1850 Species denotes SARS-CoV-2 Tax:2697049
23 1545-1555 Disease denotes infections MESH:D007239
24 1624-1634 Disease denotes infections MESH:D007239
25 1677-1686 Disease denotes infection MESH:D007239
28 1991-1998 Species denotes persons Tax:9606
29 1900-1921 Disease denotes SARS-CoV-2 infections MESH:C000657245

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 321-342 http://purl.obolibrary.org/obo/GO_0001171 denotes reverse transcription
T2 329-342 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1 0-119 Sentence denotes SARS-CoV-2 Community Transmission disproportionately affects Latinx population during Shelter-in-Place in San Francisco
T2 121-129 Sentence denotes Abstract
T3 130-138 Sentence denotes Abstract
T4 140-150 Sentence denotes Background
T5 151-289 Sentence denotes There is urgent need to understand the dynamics and risk factors driving ongoing SARS-CoV-2 transmission during shelter-in-place mandates.
T6 291-298 Sentence denotes Methods
T7 299-500 Sentence denotes We offered SARS-CoV-2 reverse transcription-PCR and antibody (Abbott ARCHITECT IgG) testing, regardless of symptoms, to all residents (≥4 years) and workers in a San Francisco census tract (population:
T8 501-562 Sentence denotes 5,174) at outdoor, community-mobilized events over four days.
T9 563-818 Sentence denotes We estimated SARS-CoV-2 point prevalence (PCR-positive) and cumulative incidence (antibody or PCR-positive) in the census tract and evaluated risk factors for recent (PCR-positive/antibody-negative) versus prior infection (antibody-positive/PCR-negative).
T10 819-980 Sentence denotes SARS-CoV-2 genome recovery and phylogenetics were used to measure viral strain diversity, establish viral lineages present, and estimate number of introductions.
T11 982-989 Sentence denotes Results
T12 990-1014 Sentence denotes We tested 3,953 persons:
T13 1015-1078 Sentence denotes 40% Latinx; 41% White; 9% Asian/Pacific Islander; and 2% Black.
T14 1079-1124 Sentence denotes Overall, 2.1% (83/3,871) tested PCR-positive:
T15 1125-1174 Sentence denotes 95% were Latinx and 52% asymptomatic when tested.
T16 1175-1273 Sentence denotes 1.7% of census tract residents and 6.0% of workers (non-census tract residents) were PCR-positive.
T17 1274-1363 Sentence denotes Among 2,598 tract residents, estimated point prevalence of PCR-positives was 2.3% (95%CI:
T18 1364-1374 Sentence denotes 1.2-3.8%):
T19 1375-1387 Sentence denotes 3.9% (95%CI:
T20 1388-1427 Sentence denotes 2.0-6.4%) among Latinx vs. 0.2% (95%CI:
T21 1428-1463 Sentence denotes 0.0-0.4%) among non-Latinx persons.
T22 1464-1527 Sentence denotes Estimated cumulative incidence among residents was 6.1% (95%CI:
T23 1528-1538 Sentence denotes 4.0-8.6%).
T24 1539-1610 Sentence denotes Prior infections were 67% Latinx, 16% White, and 17% other ethnicities.
T25 1611-1652 Sentence denotes Among recent infections, 96% were Latinx.
T26 1653-1834 Sentence denotes Risk factors for recent infection were Latinx ethnicity, inability to shelter-in-place and maintain income, frontline service work, unemployment, and household income &$50,000/year.
T27 1835-1887 Sentence denotes Five SARS-CoV-2 phylogenetic lineages were detected.
T28 1889-1899 Sentence denotes Conclusion
T29 1900-2094 Sentence denotes SARS-CoV-2 infections from diverse lineages continued circulating among low-income, Latinx persons unable to work from home and maintain income during San Francisco’s shelter-in-place ordinance.