PMC:7152911 / 121126-124288 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1906 1007-1035 Species denotes human immunodeficiency virus Tax:12721
1907 1037-1040 Species denotes HIV Tax:12721
1908 851-860 Disease denotes mortality MESH:D003643
1909 1308-1316 Disease denotes COVID-19 MESH:C000657245
1927 1801-1822 Species denotes Plasmodium falciparum Tax:5833
1928 2144-2152 Species denotes children Tax:9606
1929 2275-2290 Species denotes influenza virus Tax:11309
1930 2319-2331 Species denotes rabies virus Tax:11292
1931 1666-1679 Species denotes Mycobacterium Tax:1773
1932 1684-1694 Species denotes Plasmodium Tax:5833
1933 1777-1790 Species denotes Mycobacterium Tax:1773
1934 1792-1795 Species denotes HIV Tax:12721
1935 2094-2096 Species denotes CD Tax:1496
1936 1860-1865 Disease denotes death MESH:D003643
1937 1871-1890 Disease denotes infectious diseases MESH:D003141
1938 2012-2034 Disease denotes respiratory infections MESH:D012141
1939 2050-2060 Disease denotes infections MESH:D007239
1940 2066-2084 Disease denotes diarrheal diseases MESH:D004403
1941 2292-2300 Disease denotes COVID-19 MESH:C000657245
1942 2302-2317 Disease denotes hepatitis virus MESH:D006525
1943 2365-2374 Disease denotes pneumonia MESH:D011014
1946 2625-2634 Species denotes influenza Tax:11320
1947 2718-2721 Species denotes HIV Tax:12721

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T19 148-159 Body_part denotes body fluids http://purl.org/sig/ont/fma/fma280556
T20 148-152 Body_part denotes body http://purl.org/sig/ont/fma/fma256135
T21 177-182 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670
T22 184-189 Body_part denotes stool http://purl.org/sig/ont/fma/fma64183
T23 191-196 Body_part denotes urine http://purl.org/sig/ont/fma/fma12274
T24 198-203 Body_part denotes mucus http://purl.org/sig/ont/fma/fma66938
T25 205-211 Body_part denotes saliva http://purl.org/sig/ont/fma/fma59862
T26 216-222 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T27 318-329 Body_part denotes body fluids http://purl.org/sig/ont/fma/fma280556
T28 318-322 Body_part denotes body http://purl.org/sig/ont/fma/fma256135
T29 1037-1040 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T30 1220-1228 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T31 1792-1795 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T32 2036-2049 Body_part denotes urinary tract http://purl.org/sig/ont/fma/fma0326482
T33 2195-2209 Body_part denotes immune systems http://purl.org/sig/ont/fma/fma9825
T34 2718-2721 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T35 2754-2757 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T36 3023-3028 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670
T37 3036-3041 Body_part denotes urine http://purl.org/sig/ont/fma/fma12274

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T23 177-182 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T24 184-189 Body_part denotes stool http://purl.obolibrary.org/obo/UBERON_0001988
T25 191-196 Body_part denotes urine http://purl.obolibrary.org/obo/UBERON_0001088
T26 198-203 Body_part denotes mucus http://purl.obolibrary.org/obo/UBERON_0000912
T27 205-211 Body_part denotes saliva http://purl.obolibrary.org/obo/UBERON_0001836
T28 216-222 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T29 2195-2209 Body_part denotes immune systems http://purl.obolibrary.org/obo/UBERON_0002405
T30 3023-3028 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T31 3036-3041 Body_part denotes urine http://purl.obolibrary.org/obo/UBERON_0001088

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T107 1013-1029 Disease denotes immunodeficiency http://purl.obolibrary.org/obo/MONDO_0021094
T108 1308-1316 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T109 1871-1881 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T110 2012-2034 Disease denotes respiratory infections http://purl.obolibrary.org/obo/MONDO_0024355
T111 2036-2060 Disease denotes urinary tract infections http://purl.obolibrary.org/obo/MONDO_0001650|http://purl.obolibrary.org/obo/MONDO_0005247
T113 2066-2084 Disease denotes diarrheal diseases http://purl.obolibrary.org/obo/MONDO_0001673
T114 2101-2105 Disease denotes MRSA http://purl.obolibrary.org/obo/MONDO_0100073
T115 2275-2284 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T116 2292-2300 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T117 2302-2311 Disease denotes hepatitis http://purl.obolibrary.org/obo/MONDO_0002251
T118 2319-2325 Disease denotes rabies http://purl.obolibrary.org/obo/MONDO_0019173
T119 2354-2374 Disease denotes Mycoplasma pneumonia http://purl.obolibrary.org/obo/MONDO_0005867
T120 2365-2374 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T121 2390-2399 Disease denotes pertussis http://purl.obolibrary.org/obo/MONDO_0005077
T122 2405-2415 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T123 2606-2616 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T124 2625-2634 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T125 2699-2709 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T127 41-46 http://purl.obolibrary.org/obo/UBERON_0007688 denotes field
T128 148-159 http://purl.obolibrary.org/obo/UBERON_0006314 denotes body fluids
T129 171-182 http://purl.obolibrary.org/obo/UBERON_0000178 denotes whole blood
T130 171-182 http://www.ebi.ac.uk/efo/EFO_0000296 denotes whole blood
T131 318-329 http://purl.obolibrary.org/obo/UBERON_0006314 denotes body fluids
T132 472-473 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T133 734-741 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T134 1007-1012 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T135 1030-1035 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T136 1070-1071 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T137 1239-1242 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T138 1520-1522 http://www.ebi.ac.uk/efo/EFO_0000265 denotes da
T139 2036-2049 http://purl.obolibrary.org/obo/UBERON_0001008 denotes urinary tract
T140 2195-2209 http://purl.obolibrary.org/obo/UBERON_0002405 denotes immune systems
T141 2285-2290 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T142 2312-2317 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T143 2326-2331 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T144 2337-2345 http://purl.obolibrary.org/obo/NCBITaxon_2 denotes bacteria
T145 2945-2946 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T146 3011-3019 http://purl.obolibrary.org/obo/NCBITaxon_2 denotes bacteria
T147 3023-3028 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
T148 3023-3028 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T6251 338-342 Chemical denotes gold http://purl.obolibrary.org/obo/CHEBI_29287|http://purl.obolibrary.org/obo/CHEBI_30050
T84608 828-841 Chemical denotes antimicrobial http://purl.obolibrary.org/obo/CHEBI_33281
T88200 2094-2096 Chemical denotes CD http://purl.obolibrary.org/obo/CHEBI_8673

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T6 2998-3019 http://purl.obolibrary.org/obo/GO_0016045 denotes detection of bacteria

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T16 1013-1029 Phenotype denotes immunodeficiency http://purl.obolibrary.org/obo/HP_0002721
T17 2012-2034 Phenotype denotes respiratory infections http://purl.obolibrary.org/obo/HP_0011947
T18 2036-2060 Phenotype denotes urinary tract infections http://purl.obolibrary.org/obo/HP_0000010
T19 2302-2311 Phenotype denotes hepatitis http://purl.obolibrary.org/obo/HP_0012115
T20 2365-2374 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T979 0-36 Sentence denotes 4.3 Medical diagnostic applications
T980 37-223 Sentence denotes The field of medical diagnostics heavily relies on the identification and quantification of pathogens found in body fluids, including whole blood, stool, urine, mucus, saliva, or sputum.
T981 224-454 Sentence denotes Diagnostic assays based on traditional bioanalytical techniques for detection of pathogens in body fluids are the gold standard and serve an essential role in healthcare by enabling the diagnosis and treatment of various diseases.
T982 455-695 Sentence denotes Biosensors offer a complementary diagnostic platform that enable rapid and cost-effective measurements, high sensitivity, and the ability to make measurements in complex matrices that pose challenges to traditional bioanalytical techniques.
T983 696-886 Sentence denotes Studies suggest that rapid diagnostic testing can potentially reduce the chance of hospitalization, duration of hospitalization and antimicrobial use, and mortality rates (Barenfanger et al.
T984 887-908 Sentence denotes 2000; Beekmann et al.
T985 909-929 Sentence denotes 2003; Dierkes et al.
T986 930-948 Sentence denotes 2009; Rappo et al.
T987 949-955 Sentence denotes 2016).
T988 956-1179 Sentence denotes For example, repeated rapid screening programs for human immunodeficiency virus (HIV) detection is recommended as a means of increasing quality-adjusted life years of health for citizens in the United States (Paltiel et al.
T989 1180-1186 Sentence denotes 2006).
T990 1187-1326 Sentence denotes Additionally, the need for rapid antibody screening has been identified as an important aspect of mitigating the ongoing COVID-19 pandemic.
T991 1327-1563 Sentence denotes Several comprehensive reviews have been published on traditional bioanalytical assays and biosensor-based assays for pathogen detection in medical diagnostics applications (Ahmed et al., 2014; da Silva et al., 2017; Singh et al., 2014).
T992 1564-1758 Sentence denotes Common pathogens include the aforementioned foodborne, waterborne, and environmental pathogens (e.g., Mycobacterium and Plasmodium spp.), as well as additional airborne and bloodborne pathogens.
T993 1759-1914 Sentence denotes Pathogens such as Mycobacterium, HIV, and Plasmodium falciparum, represent some of the top causes of death from infectious diseases worldwide (WHO, 2018a).
T994 1915-2210 Sentence denotes Other common pathogens associated with medical diagnostics applications include those that cause respiratory infections, urinary tract infections, and diarrheal diseases, such as CD and MRSA, which can be life-threatening to the children, elderly and individuals with compromised immune systems.
T995 2211-2400 Sentence denotes Other airborne and bloodborne pathogens of interest include the influenza virus, COVID-19, hepatitis virus, rabies virus, and bacteria such as Mycoplasma pneumonia and Bordetella pertussis.
T996 2401-2588 Sentence denotes The infectious dose of airborne and bloodborne pathogens also varies by orders of magnitude depending on the pathogen, the method of contraction, and the age and health of the individual.
T997 2589-2832 Sentence denotes For example, the infectious dose of influenza is between 100–1000 particles (Gürtler, 2006), while the median infectious dose of HIV can vary, for example, from two RNA copies to 65,000 depending on the strain and source (Reid and Juma, 2009).
T998 2833-2980 Sentence denotes The diagnostically-relevant concentration of pathogens in each type of matrix must be considered when designing a biosensor for pathogen detection.
T999 2981-3097 Sentence denotes For example, the detection of bacteria in blood versus urine exhibit different diagnostic thresholds (Kelley, 2017).
T1000 3098-3162 Sentence denotes Such knowledge can inform the need for sample preparation steps.

2_test

Id Subject Object Predicate Lexical cue
32364936-10921934-7713169 887-891 10921934 denotes 2000
32364936-12843051-7713170 909-913 12843051 denotes 2003
32364936-19671147-7713171 930-934 19671147 denotes 2009
32364936-27225406-7713172 949-953 27225406 denotes 2016
32364936-17146064-7713173 1180-1184 17146064 denotes 2006
32364936-24982325-7713174 1514-1518 24982325 denotes 2014
32364936-19948896-7713175 2826-2830 19948896 denotes 2009
32364936-28723142-7713176 3091-3095 28723142 denotes 2017