PMC:7386785 / 109386-112518 JSONTXT

Annnotations TAB JSON ListView MergeView

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T9 1092-1096 Body_part denotes Body http://purl.org/sig/ont/fma/fma256135

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T461 72-76 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T462 430-438 Disease denotes COVID‐19 http://purl.obolibrary.org/obo/MONDO_0100096
T463 655-659 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T464 704-708 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T465 1172-1176 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T466 1183-1192 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T467 1193-1195 Disease denotes RS http://purl.obolibrary.org/obo/MONDO_0010725

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T68 83-87 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T69 403-409 http://purl.obolibrary.org/obo/CLO_0001658 denotes active
T70 419-425 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T71 635-641 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T72 684-690 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T73 807-813 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T74 1051-1056 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T75 1193-1195 http://purl.obolibrary.org/obo/CLO_0008882 denotes RS
T76 1222-1226 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T77 1262-1267 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T78 1286-1290 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T79 1530-1531 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T80 1598-1599 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T81 1951-1955 http://purl.obolibrary.org/obo/UBERON_0000473 denotes Test
T82 1961-1966 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T83 1983-1987 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T84 2086-2087 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T85 2190-2194 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T86 2271-2275 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T87 2576-2581 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T88 2909-2913 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T60076 1067-1073 Chemical denotes oxygen http://purl.obolibrary.org/obo/CHEBI_25805
T87819 1193-1195 Chemical denotes RS http://purl.obolibrary.org/obo/CHEBI_73819

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T389 1058-1065 Phenotype denotes Hypoxia http://purl.obolibrary.org/obo/HP_0012418

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1284 0-12 Sentence denotes Rentsch 2020
T1285 13-34 Sentence denotes Study characteristics
T1286 35-290 Sentence denotes Patient Sampling Purpose: diagnosis SARS‐CoV‐2 test positivesDesign: cross‐sectional, retrospective studyRecruitment: electronic health record data from the national Veterans Affairs Healthcare System ‐ national Corporate Data Warehouse (USA)Sample size:
T1287 291-581 Sentence denotes 3789 (585 cases)Inclusion criteria: all patients in the Veterans Affairs cohort, born between 1945 and 1965 and active in care, tested for COVID‐19 between 8 February and 30 March 2020Exclusion criteria: patients for whom results were pending (n = 93) or inconclusive (n = 33) were excluded
T1288 582-732 Sentence denotes Patient characteristics and setting Facility cases: tested positive for SARS‐CoV‐2Facility controls: tested negative for SARS‐CoV‐2Country: USADates:
T1289 733-860 Sentence denotes 8 February 2020‐30 March 2020Symptoms and severity: all patients who were tested were includedDemographics: median age overall:
T1290 861-895 Sentence denotes 65.7 years (IQR 60.5‐70.7) (cases:
T1291 896-917 Sentence denotes 66.1 years, controls:
T1292 918-953 Sentence denotes 65.6 years);gender overall (M%/F%):
T1293 954-1044 Sentence denotes 90.2/9.8, cases 95.4/4.6, controls 89.2/10.8Exposure history: not specified (all over USA)
T1294 1045-1091 Sentence denotes Index tests Hypoxia (oxygen saturation ≤ 93%)
T1295 1092-1123 Sentence denotes Body temperature (3 categories)
T1296 1124-1192 Sentence denotes Target condition and reference standard(s) TC: SARS‐CoV‐2 infection
T1297 1193-1338 Sentence denotes RS: no data on reference PCR test used, multiple different reference tests used with unknown test characteristics (samples: nasopharyngeal swabs)
T1298 1339-1384 Sentence denotes Flow and timing Time interval maximum 2 days
T1299 1385-1399 Sentence denotes Comparative  
T1300 1400-1408 Sentence denotes Notes  
T1301 1409-1431 Sentence denotes Methodological quality
T1302 1432-1497 Sentence denotes Item Authors' judgement Risk of bias Applicability concerns
T1303 1498-1507 Sentence denotes DOMAIN 1:
T1304 1508-1525 Sentence denotes Patient Selection
T1305 1526-1582 Sentence denotes Was a consecutive or random sample of patients enrolled?
T1306 1584-1593 Sentence denotes Yes    
T1307 1594-1628 Sentence denotes Was a case‐control design avoided?
T1308 1630-1639 Sentence denotes Yes    
T1309 1640-1685 Sentence denotes Did the study avoid inappropriate exclusions?
T1310 1687-1696 Sentence denotes Yes    
T1311 1697-1742 Sentence denotes Did the study avoid inappropriate inclusions?
T1312 1744-1757 Sentence denotes Unclear    
T1313 1758-1827 Sentence denotes Could the selection of patients have introduced bias?   Low risk  
T1314 1828-1934 Sentence denotes Are there concerns that the included patients and setting do not match the review question?     Unclear
T1315 1935-1944 Sentence denotes DOMAIN 2:
T1316 1945-1967 Sentence denotes Index Test (All tests)
T1317 1968-2067 Sentence denotes Were the index test results interpreted without knowledge of the results of the reference standard?
T1318 2069-2082 Sentence denotes Unclear    
T1319 2083-2129 Sentence denotes If a threshold was used, was it pre‐specified?
T1320 2131-2140 Sentence denotes Yes    
T1321 2141-2236 Sentence denotes Could the conduct or interpretation of the index test have introduced bias?   Unclear risk  
T1322 2237-2359 Sentence denotes Are there concerns that the index test, its conduct, or interpretation differ from the review question?     Low concern
T1323 2360-2369 Sentence denotes DOMAIN 3:
T1324 2370-2388 Sentence denotes Reference Standard
T1325 2389-2466 Sentence denotes Is the reference standards likely to correctly classify the target condition?
T1326 2468-2481 Sentence denotes Unclear    
T1327 2482-2582 Sentence denotes Were the reference standard results interpreted without knowledge of the results of the index tests?
T1328 2584-2597 Sentence denotes Unclear    
T1329 2598-2704 Sentence denotes Could the reference standard, its conduct, or its interpretation have introduced bias?   Unclear risk  
T1330 2705-2834 Sentence denotes Are there concerns that the target condition as defined by the reference standard does not match the question?     Low concern
T1331 2835-2844 Sentence denotes DOMAIN 4:
T1332 2845-2860 Sentence denotes Flow and Timing
T1333 2861-2937 Sentence denotes Was there an appropriate interval between index test and reference standard?
T1334 2939-2948 Sentence denotes Yes    
T1335 2949-3002 Sentence denotes Did all patients receive the same reference standard?
T1336 3004-3017 Sentence denotes Unclear    
T1337 3018-3061 Sentence denotes Were all patients included in the analysis?
T1338 3063-3071 Sentence denotes No    
T1339 3072-3132 Sentence denotes Could the patient flow have introduced bias?   Low risk  

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
2001 35-42 Species denotes Patient Tax:9606
2002 72-82 Species denotes SARS‐CoV‐2 Tax:2697049
2003 331-339 Species denotes patients Tax:9606
2004 495-503 Species denotes patients Tax:9606
2005 582-589 Species denotes Patient Tax:9606
2006 655-665 Species denotes SARS‐CoV‐2 Tax:2697049
2007 704-714 Species denotes SARS‐CoV‐2 Tax:2697049
2008 789-797 Species denotes patients Tax:9606
2009 1016-1029 Species denotes not specified Tax:32644
2010 1172-1182 Species denotes SARS‐CoV‐2 Tax:2697049
2011 1508-1515 Species denotes Patient Tax:9606
2012 1564-1572 Species denotes patients Tax:9606
2013 1781-1789 Species denotes patients Tax:9606
2014 1865-1873 Species denotes patients Tax:9606
2015 2957-2965 Species denotes patients Tax:9606
2016 3027-3035 Species denotes patients Tax:9606
2017 3082-3089 Species denotes patient Tax:9606
2018 430-438 Disease denotes COVID‐19 MESH:C000657245
2019 1058-1065 Disease denotes Hypoxia MESH:D000860