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PMC:7102591 / 7207-10150 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
217 50-58 Species denotes patients Tax:9606
218 18-33 Disease denotes viral infection MESH:D001102
219 47-49 Disease denotes RA MESH:D001172
252 650-661 Species denotes coronavirus Tax:11118
253 732-740 Species denotes patients Tax:9606
254 890-898 Species denotes patients Tax:9606
255 1068-1076 Species denotes patients Tax:9606
256 1112-1120 Species denotes patients Tax:9606
257 1310-1318 Species denotes patients Tax:9606
258 1699-1707 Species denotes patients Tax:9606
259 1948-1958 Species denotes outpatient Tax:9606
260 2124-2132 Species denotes patients Tax:9606
261 530-541 Species denotes respiratory Tax:12814
262 85-87 Disease denotes RA MESH:D001172
263 92-111 Disease denotes infectious diseases MESH:D003141
264 283-292 Disease denotes arthritis MESH:D001168
265 442-451 Disease denotes infection MESH:D007239
266 542-558 Disease denotes viral infections MESH:D001102
267 582-584 Disease denotes RA MESH:D001172
268 707-709 Disease denotes RA MESH:D001172
269 765-774 Disease denotes arthritis MESH:D001168
270 776-786 Disease denotes infections MESH:D007239
271 887-889 Disease denotes RA MESH:D001172
272 936-945 Disease denotes infection MESH:D007239
273 1093-1095 Disease denotes RA MESH:D001172
274 1109-1111 Disease denotes RA MESH:D001172
275 1237-1247 Disease denotes infections MESH:D007239
276 1324-1350 Disease denotes inflammatory polyarthritis MESH:D001168
277 1406-1415 Disease denotes infection MESH:D007239
278 1548-1568 Disease denotes autoimmune disorders MESH:D001327
279 1696-1698 Disease denotes RA MESH:D001172
280 1842-1852 Disease denotes infections MESH:D007239
281 1959-1969 Disease denotes infections MESH:D007239
282 2084-2094 Disease denotes infections MESH:D007239
283 2377-2401 Disease denotes infectious complications MESH:D011251
293 2533-2535 Disease denotes RA MESH:D001172
294 2542-2559 Disease denotes Diabetes mellitus MESH:D003920
295 2561-2584 Disease denotes cardiovascular diseases MESH:D002318
296 2586-2599 Disease denotes renal failure MESH:D051437
297 2601-2626 Disease denotes interstitial lung disease MESH:D017563
298 2632-2669 Disease denotes chronic obstructive pulmonary disease MESH:D029424
299 2671-2675 Disease denotes COPD MESH:D029424
300 2749-2759 Disease denotes infections MESH:D007239
301 2763-2765 Disease denotes RA MESH:D001172
304 2784-2786 Disease denotes RA MESH:D001172
305 2814-2824 Disease denotes infections MESH:D007239

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T44 191-195 Body_part denotes hand http://purl.org/sig/ont/fma/fma9712
T45 346-352 Body_part denotes joints http://purl.org/sig/ont/fma/fma73023
T46 881-885 Body_part denotes hand http://purl.org/sig/ont/fma/fma9712
T47 1519-1532 Body_part denotes immune system http://purl.org/sig/ont/fma/fma9825
T48 2614-2618 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T12 191-195 Body_part denotes hand http://purl.obolibrary.org/obo/UBERON_0002398
T13 881-885 Body_part denotes hand http://purl.obolibrary.org/obo/UBERON_0002398
T14 1519-1532 Body_part denotes immune system http://purl.obolibrary.org/obo/UBERON_0002405
T15 2614-2618 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T86 18-33 Disease denotes viral infection http://purl.obolibrary.org/obo/MONDO_0005108
T87 24-33 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T88 47-49 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T90 85-87 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T92 92-102 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T93 283-292 Disease denotes arthritis http://purl.obolibrary.org/obo/MONDO_0005578
T94 442-451 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T95 542-558 Disease denotes viral infections http://purl.obolibrary.org/obo/MONDO_0005108
T96 582-584 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T98 707-709 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T100 765-774 Disease denotes arthritis http://purl.obolibrary.org/obo/MONDO_0005578
T101 776-786 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T102 887-889 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T104 936-945 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T105 1093-1095 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T107 1109-1111 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T109 1237-1247 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T110 1337-1350 Disease denotes polyarthritis http://purl.obolibrary.org/obo/MONDO_0024280
T111 1393-1415 Disease denotes hospitalized infection http://purl.obolibrary.org/obo/MONDO_0043544
T112 1406-1415 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T113 1548-1568 Disease denotes autoimmune disorders http://purl.obolibrary.org/obo/MONDO_0007179
T114 1696-1698 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T116 1842-1852 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T117 1959-1969 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T118 2084-2094 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T119 2377-2387 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T120 2441-2451 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T121 2533-2535 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T123 2542-2559 Disease denotes Diabetes mellitus http://purl.obolibrary.org/obo/MONDO_0005015
T124 2561-2584 Disease denotes cardiovascular diseases http://purl.obolibrary.org/obo/MONDO_0004995
T125 2586-2599 Disease denotes renal failure http://purl.obolibrary.org/obo/MONDO_0001106
T126 2601-2626 Disease denotes interstitial lung disease http://purl.obolibrary.org/obo/MONDO_0015925
T127 2614-2626 Disease denotes lung disease http://purl.obolibrary.org/obo/MONDO_0005275
T128 2632-2669 Disease denotes chronic obstructive pulmonary disease http://purl.obolibrary.org/obo/MONDO_0005002
T129 2652-2669 Disease denotes pulmonary disease http://purl.obolibrary.org/obo/MONDO_0005275
T130 2671-2675 Disease denotes COPD http://purl.obolibrary.org/obo/MONDO_0005002
T131 2749-2762 Disease denotes infections in http://purl.obolibrary.org/obo/MONDO_0005550
T132 2763-2765 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T134 2784-2786 Disease denotes RA http://purl.obolibrary.org/obo/MONDO_0005272|http://purl.obolibrary.org/obo/MONDO_0008383
T136 2814-2824 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T55 326-338 http://purl.obolibrary.org/obo/UBERON_0001155 denotes colonization
T56 346-352 http://purl.obolibrary.org/obo/UBERON_0000982 denotes joints
T57 505-506 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T58 608-609 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T59 791-792 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T60 850-852 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T61 905-906 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T62 984-985 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T63 1125-1126 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T64 1265-1266 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T65 1360-1363 http://purl.obolibrary.org/obo/CLO_0001562 denotes a 2
T66 1360-1363 http://purl.obolibrary.org/obo/CLO_0001563 denotes a 2
T67 1491-1492 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T68 1519-1532 http://purl.obolibrary.org/obo/UBERON_0002405 denotes immune system
T69 1617-1625 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T70 1639-1642 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T71 1776-1784 http://purl.obolibrary.org/obo/CLO_0001658 denotes Activity
T72 1818-1819 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T73 1925-1926 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T74 1981-1988 http://purl.obolibrary.org/obo/CLO_0052947 denotes p = .01
T75 2009-2010 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T76 2281-2289 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T77 2335-2336 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T78 2537-2539 http://purl.obolibrary.org/obo/CLO_0001302 denotes 34
T79 2614-2618 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T80 2614-2618 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T55 47-49 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T56 85-87 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T57 582-584 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T58 707-709 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T59 887-889 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T60 1093-1095 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T61 1109-1111 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T62 1165-1167 Chemical denotes RR http://purl.obolibrary.org/obo/CHEBI_73811
T63 1210-1212 Chemical denotes RR http://purl.obolibrary.org/obo/CHEBI_73811
T64 1696-1698 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T65 2533-2535 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T66 2763-2765 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810
T67 2784-2786 Chemical denotes RA http://purl.obolibrary.org/obo/CHEBI_73810

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T12 18-33 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infection
T13 542-558 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infections

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T39 0-59 Sentence denotes 3 Is the risk of viral infection increased in RA patients?
T40 60-179 Sentence denotes The relationship between RA and infectious diseases is very complex and can be interpreted in two different directions.
T41 180-474 Sentence denotes On the one hand, in fact, the potential role of external microorganisms in producing acute and chronic arthritis in the form of either the direct colonization of the joints by the pathogen or the aberrant autoimmune reaction produced by the host response to the infection is well known [23,24].
T42 475-715 Sentence denotes Few studies have investigated a potential link between respiratory viral infections and the development of RA [25] and in particular a Korean study reported parainfluenza and coronavirus to be associated with the number of incident RA [26].
T43 716-867 Sentence denotes In addition, in patients with overt inflammatory arthritis, infections are a major concern as they can contribute to disease flares [[27], [28], [29]].
T44 868-983 Sentence denotes On the other hand, RA patients carry a documented increased risk of infection compared with the general population.
T45 984-1253 Sentence denotes A population-based study by Doran and colleagues compared two matched groups of 609 patients with or without RA showing that RA patients had a significantly higher risk of serious (RR 1.53, 95% CI 1.41–1.65) and hospitalized (RR 1.88, 95% CI 1.71–2.07) infections [30].
T46 1254-1452 Sentence denotes Similarly, a prospective cohort study conducted on 2108 patients with inflammatory polyarthritis reported a 2- to 4-fold increased risk of hospitalized infection compared to healthy population [31].
T47 1453-1626 Sentence denotes This trend is primarily the result of a general impairment of the immune system typical of all autoimmune disorders and strictly dependent on the degree of disease activity.
T48 1627-1995 Sentence denotes In fact, it has been demonstrated by an analysis conducted in 16,242 RA patients from the US CORRONA registry that each 0.6 unit increase in Disease Activity Score 28 (DAS28) corresponded to a 25% increased rate of infections requiring hospitalization (Incident rate ratio [IRR] 1.25, p = .03) and a 4% increased rate of outpatient infections (IRR 1.04, p = .01) [32].
T49 1996-2407 Sentence denotes In addition, a subsequent report from the same registry showed that the risk of serious infections increased progressively from patients achieving clinical remission to those achieving low (adjusted IRR 1.69, 95% CI 1.32–2.15) or moderate (adjusted IRR 1.30, 95% CI 1.09–1.56) disease activity, demonstrating the importance of maintaining a good disease control in order to reduce infectious complications [33].
T50 2408-2541 Sentence denotes Another important determinant of infectious risk is the presence of comorbidities, which very often complicate the course of RA [34].
T51 2542-2774 Sentence denotes Diabetes mellitus, cardiovascular diseases, renal failure, interstitial lung disease, and chronic obstructive pulmonary disease (COPD) are all concomitant disorders associated with an increased incidence of infections in RA [27,35].
T52 2775-2943 Sentence denotes Finally, RA can also be complicated by infections caused by the iatrogenic effect of immunosuppressive therapies, which will be discussed in detail in the next section.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T30 47-49 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T31 85-87 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T32 283-292 Phenotype denotes arthritis http://purl.obolibrary.org/obo/HP_0001369
T33 582-584 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T34 707-709 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T35 765-774 Phenotype denotes arthritis http://purl.obolibrary.org/obo/HP_0001369
T36 887-889 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T37 1093-1095 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T38 1109-1111 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T39 1548-1568 Phenotype denotes autoimmune disorders http://purl.obolibrary.org/obo/HP_0002960
T40 1696-1698 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T41 2533-2535 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T42 2542-2559 Phenotype denotes Diabetes mellitus http://purl.obolibrary.org/obo/HP_0000819
T43 2561-2584 Phenotype denotes cardiovascular diseases http://purl.obolibrary.org/obo/HP_0001626
T44 2586-2599 Phenotype denotes renal failure http://purl.obolibrary.org/obo/HP_0000083
T45 2601-2626 Phenotype denotes interstitial lung disease http://purl.obolibrary.org/obo/HP_0006530
T46 2632-2669 Phenotype denotes chronic obstructive pulmonary disease http://purl.obolibrary.org/obo/HP_0006510
T47 2671-2675 Phenotype denotes COPD http://purl.obolibrary.org/obo/HP_0006510
T48 2763-2765 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370
T49 2784-2786 Phenotype denotes RA http://purl.obolibrary.org/obo/HP_0001370

2_test

Id Subject Object Predicate Lexical cue
32205186-26096095-4826871 467-469 26096095 denotes 23
32205186-23266520-4826872 470-472 23266520 denotes 24
32205186-29259607-4826873 586-588 29259607 denotes 25
32205186-31470887-4826874 711-713 31470887 denotes 26
32205186-23192911-4826875 850-852 23192911 denotes 27
32205186-20675706-4826876 856-858 20675706 denotes 28
32205186-12355475-4826877 1249-1251 12355475 denotes 30
32205186-16984941-4826878 1448-1450 16984941 denotes 31
32205186-21288960-4826879 1991-1993 21288960 denotes 32
32205186-24095940-4826880 2537-2539 24095940 denotes 34
32205186-23192911-4826881 2767-2769 23192911 denotes 27
32205186-23813577-4826882 2770-2772 23813577 denotes 35