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PMC:7463108 / 92836-96886 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T875 5-8 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T876 82-85 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T877 142-145 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T878 395-398 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T879 1250-1254 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T880 1508-1511 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T881 1565-1569 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T882 1629-1640 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T883 1645-1649 Body_part denotes glia http://purl.org/sig/ont/fma/fma54541
T884 1766-1776 Body_part denotes leukocytes http://purl.org/sig/ont/fma/fma62852
T885 1788-1799 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T886 1829-1840 Body_part denotes enkephalins http://purl.org/sig/ont/fma/fma83367
T887 1897-1906 Body_part denotes leukocyte http://purl.org/sig/ont/fma/fma62852
T888 1986-1998 Body_part denotes Granulocytes http://purl.org/sig/ont/fma/fma62854
T889 2117-2128 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T890 2196-2230 Body_part denotes peripheral blood mononuclear cells http://purl.org/sig/ont/fma/fma86713
T891 2225-2230 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T892 2379-2388 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050
T893 2398-2411 Body_part denotes interleukin-1 http://purl.org/sig/ont/fma/fma86583
T894 2414-2418 Body_part denotes IL-1 http://purl.org/sig/ont/fma/fma86583
T895 2527-2537 Body_part denotes astrocytes http://purl.org/sig/ont/fma/fma54537
T896 2562-2567 Body_part denotes brain http://purl.org/sig/ont/fma/fma50801
T897 2673-2682 Body_part denotes microglia http://purl.org/sig/ont/fma/fma68923
T898 2722-2726 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T899 2756-2759 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T900 2765-2768 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T901 2828-2833 Body_part denotes brain http://purl.org/sig/ont/fma/fma50801
T902 2870-2873 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T903 2932-2935 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T904 3301-3304 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T905 3393-3396 Body_part denotes CNS http://purl.org/sig/ont/fma/fma55675
T906 3507-3511 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T907 3553-3564 Body_part denotes hippocampus http://purl.org/sig/ont/fma/fma275020
T908 3569-3577 Body_part denotes striatum http://purl.org/sig/ont/fma/fma77618
T909 3662-3670 Body_part denotes striatum http://purl.org/sig/ont/fma/fma77618
T910 3680-3684 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T911 3699-3710 Body_part denotes hippocampus http://purl.org/sig/ont/fma/fma275020
T912 3795-3798 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T913 3910-3915 Body_part denotes brain http://purl.org/sig/ont/fma/fma50801
T914 3921-3925 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T915 3968-3971 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T916 4031-4035 Body_part denotes HAND http://purl.org/sig/ont/fma/fma9712

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T171 2207-2212 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T172 2562-2567 Body_part denotes brain http://purl.obolibrary.org/obo/UBERON_0000955
T173 2828-2833 Body_part denotes brain http://purl.obolibrary.org/obo/UBERON_0000955
T174 3393-3396 Body_part denotes CNS http://purl.obolibrary.org/obo/UBERON_0001017
T175 3569-3577 Body_part denotes striatum http://purl.obolibrary.org/obo/UBERON_0002435
T176 3662-3670 Body_part denotes striatum http://purl.obolibrary.org/obo/UBERON_0002435
T177 3910-3915 Body_part denotes brain http://purl.obolibrary.org/obo/UBERON_0000955

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T199 972-991 Disease denotes neurologic diseases http://purl.obolibrary.org/obo/MONDO_0005071
T200 1508-1521 Disease denotes HIV infection http://purl.obolibrary.org/obo/MONDO_0005109
T201 1512-1521 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T202 1945-1962 Disease denotes neuroinflammation http://purl.obolibrary.org/obo/MONDO_0004466
T203 2295-2307 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166
T204 2323-2341 Disease denotes multiple sclerosis http://purl.obolibrary.org/obo/MONDO_0005301

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T936 198-206 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T937 299-307 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T938 578-585 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T939 597-602 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T940 743-746 http://purl.obolibrary.org/obo/NCBITaxon_9596 denotes Pan
T941 765-766 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T942 795-802 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T943 872-875 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T944 876-877 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T945 918-921 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T946 1411-1412 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T947 1619-1628 http://purl.obolibrary.org/obo/CLO_0001658 denotes activated
T948 1933-1941 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T949 2051-2052 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T950 2196-2230 http://purl.obolibrary.org/obo/CL_0000842 denotes peripheral blood mononuclear cells
T951 2196-2230 http://purl.obolibrary.org/obo/CL_2000001 denotes peripheral blood mononuclear cells
T952 2398-2411 http://purl.obolibrary.org/obo/PR_000001091 denotes interleukin-1
T953 2527-2537 http://purl.obolibrary.org/obo/CL_0000127 denotes astrocytes
T954 2562-2567 http://purl.obolibrary.org/obo/UBERON_0000955 denotes brain
T955 2562-2567 http://www.ebi.ac.uk/efo/EFO_0000302 denotes brain
T956 2673-2682 http://purl.obolibrary.org/obo/CL_0000129 denotes microglia
T957 2828-2833 http://purl.obolibrary.org/obo/UBERON_0000955 denotes brain
T958 2828-2833 http://www.ebi.ac.uk/efo/EFO_0000302 denotes brain
T959 3047-3054 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T960 3093-3096 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T961 3115-3120 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T962 3146-3152 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T963 3340-3347 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T964 3393-3396 http://www.ebi.ac.uk/efo/EFO_0000302 denotes CNS
T965 3393-3396 http://www.ebi.ac.uk/efo/EFO_0000908 denotes CNS
T966 3393-3396 http://purl.obolibrary.org/obo/UBERON_0001017 denotes CNS
T967 3876-3884 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T968 3908-3909 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T969 3910-3915 http://purl.obolibrary.org/obo/UBERON_0000955 denotes brain
T970 3910-3915 http://www.ebi.ac.uk/efo/EFO_0000302 denotes brain
T971 3921-3930 http://purl.obolibrary.org/obo/CL_0000000 denotes cell-type

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T3742 198-206 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T88543 253-258 Chemical denotes drugs http://purl.obolibrary.org/obo/CHEBI_23888
T375 299-307 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T95008 578-585 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T39036 795-802 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T378 804-814 Chemical denotes nociceptin http://purl.obolibrary.org/obo/CHEBI_80266
T71926 1933-1941 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T56974 2104-2110 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T15446 2414-2416 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T383 2613-2615 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T89997 2968-2978 Chemical denotes interferon http://purl.obolibrary.org/obo/CHEBI_52999
T386 3047-3054 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T84666 3340-3347 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T81260 3876-3884 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
3269 5-8 Species denotes HIV Tax:12721
3273 82-85 Species denotes HIV Tax:12721
3274 142-145 Species denotes HIV Tax:12721
3275 395-398 Species denotes HIV Tax:12721
3291 538-541 Gene denotes MOR Gene:4988
3292 543-546 Gene denotes KOR Gene:4986
3293 552-555 Gene denotes DOR Gene:58476
3294 603-622 Gene denotes proopiomelanocortin Gene:5443
3295 624-628 Gene denotes POMC Gene:5443
3296 631-643 Gene denotes prodynorphin Gene:5173
3297 645-649 Gene denotes PDYN Gene:5173
3298 656-669 Gene denotes proenkephalin Gene:5179
3299 671-675 Gene denotes PENK Gene:5179
3300 804-814 Gene denotes nociceptin Gene:5368
3301 815-826 Gene denotes orphanin FQ Gene:5368
3303 898-902 Disease denotes pain MESH:D010146
3304 972-991 Disease denotes neurologic diseases MESH:D020271
3305 1058-1062 Disease denotes pain MESH:D010146
3325 1244-1249 Gene denotes OPRK1 Gene:18387
3326 1577-1582 Gene denotes OPRK1 Gene:4986
3327 1813-1824 Gene denotes β-endorphin Gene:5443
3328 2038-2049 Gene denotes β-endorphin Gene:5443
3329 2066-2069 Gene denotes MOR Gene:4988
3330 2089-2092 Gene denotes KOR Gene:4986
3331 2170-2181 Gene denotes β-endorphin Gene:5443
3332 2398-2412 Gene denotes interleukin-1β Gene:3553
3333 2414-2419 Gene denotes IL-1β Gene:3552
3334 2490-2503 Gene denotes proenkephalin Gene:5179
3338 1320-1330 Species denotes transgenic Tax:10090
3341 1508-1521 Disease denotes HIV infection MESH:D015658
3342 2295-2307 Disease denotes inflammation MESH:D007249
3343 2323-2341 Disease denotes multiple sclerosis MESH:D009103
3352 2802-2806 Gene denotes PENK Gene:5179
3353 2968-2998 Gene denotes interferon regulatory factor 1 Gene:3659
3354 3000-3004 Gene denotes IRF1 Gene:3659
3355 3253-3257 Gene denotes PENK Gene:5179
3356 2883-2891 Species denotes patients Tax:9606
3357 3115-3120 Species denotes human Tax:9606
3358 2870-2873 Species denotes HIV Tax:12721
3359 2932-2935 Species denotes HIV Tax:12721
3372 3502-3506 Gene denotes PDYN Gene:18610
3373 3581-3584 Gene denotes Tat Gene:234724
3374 3602-3606 Gene denotes POMC Gene:18976
3375 3641-3644 Gene denotes Tat Gene:234724
3376 3675-3679 Gene denotes PENK Gene:18619
3377 3752-3755 Gene denotes Tat Gene:234724
3378 3434-3437 Gene denotes tat Gene:6898
3379 3305-3308 Gene denotes Tat Gene:6898
3380 3596-3600 Species denotes mice Tax:10090
3381 3968-3973 Species denotes HIV-1 Tax:11676
3382 3301-3304 Species denotes HIV Tax:12721
3383 3795-3798 Species denotes HIV Tax:12721

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T179 428-440 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis
T180 903-913 http://purl.obolibrary.org/obo/GO_0065007 denotes regulation
T181 2295-2307 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1192 0-44 Sentence denotes Does HIV Alter the Endogenous Opioid System?
T1193 45-237 Sentence denotes Little is known about the effects of HIV on the endogenous opioid system and the extent to which HIV might disrupt the expression and function of opioid peptides and receptors, and vice versa.
T1194 238-453 Sentence denotes Because opiate drugs act exclusively by mimicking endogenous peptides and engaging opioid receptors, it is likely that endogenous opioids also interact with HIV to some extent to affect the pathogenesis of neuroHIV.
T1195 454-709 Sentence denotes The endogenous opioid system comprises three originally described opioid receptors, MOR, KOR, and DOR and endogenous opioid peptide-expressing genes proopiomelanocortin (POMC), prodynorphin (PDYN), and proenkephalin (PENK) (Brownstein 1993; Trescot et al.
T1196 710-842 Sentence denotes 2008; Bodnar 2010; Pasternak and Pan 2013), as well as a fourth receptor (OPRN1) and peptide (nociceptin/orphanin FQ) family member.
T1197 843-1006 Sentence denotes The endogenous opioid system has a fundamental role in pain regulation and has been implicated in the pathophysiology of various neurologic diseases (Nandhu et al.
T1198 1007-1028 Sentence denotes 2010; Sauriyal et al.
T1199 1029-1088 Sentence denotes 2011; Benarroch 2012) and in pain management (Bruehl et al.
T1200 1089-1095 Sentence denotes 2013).
T1201 1096-1201 Sentence denotes Postmortem clinical studies indicate the endogenous opioid system is disrupted in neuroHIV (Gelman et al.
T1202 1202-1222 Sentence denotes 2012; Yuferov et al.
T1203 1223-1229 Sentence denotes 2014).
T1204 1230-1306 Sentence denotes Specifically, OPRK1 mRNA is significantly upregulated in PWH (Yuferov et al.
T1205 1307-1367 Sentence denotes 2014) and in transgenic neuroHIV rodent models (Chang et al.
T1206 1368-1388 Sentence denotes 2007; Fitting et al.
T1207 1389-1537 Sentence denotes 2010b) potentially as a compensatory neuroprotective function in response to inflammatory processes in the presence of HIV infection (Yuferov et al.
T1208 1538-1544 Sentence denotes 2014).
T1209 1545-1728 Sentence denotes The upregulation of mRNA coding OPRK1 is triggered by factors released by activated macrophages and glia and is supported by mechanistic studies in dorsal root ganglia (Puehler et al.
T1210 1729-1752 Sentence denotes 2006; Gabrilovac et al.
T1211 1753-1759 Sentence denotes 2012).
T1212 1760-1978 Sentence denotes Since leukocytes, including macrophages, can express β-endorphin and enkephalins, it is important to consider the potential influence of leukocyte-derived endogenous opioid peptides in neuroinflammation (Rittner et al.
T1213 1979-1985 Sentence denotes 2001).
T1214 1986-2156 Sentence denotes Granulocytes express about 10-fold higher levels of β-endorphin, a preferential MOR and lower affinity KOR endogenous ligand, than lymphocytes (Pallinger and Csaba 2008).
T1215 2157-2253 Sentence denotes Increases in β-endorphin expression by peripheral blood mononuclear cells (PBMCs) (Gironi et al.
T1216 2254-2273 Sentence denotes 2000; Gironi et al.
T1217 2274-2342 Sentence denotes 2003), coincide with inflammation and relapse in multiple sclerosis.
T1218 2343-2693 Sentence denotes Moreover, increases in inflammatory cytokines, such as interleukin-1β (IL-1β), have been demonstrated to differentially increase the expression of proenkephalin transcripts in primary astrocytes cultured from different brain regions (Ruzicka and Akil 1997) and increase IL-10-stimulated β-endorphin expression in cultured primary microglia (Wu et al.
T1219 2694-2700 Sentence denotes 2017).
T1220 2701-2794 Sentence denotes Interestingly, OPRM1 mRNA levels do not differ between HIV+ and HIV− subjects (Yuferov et al.
T1221 2795-2801 Sentence denotes 2014).
T1222 2802-2906 Sentence denotes PENK was downregulated in brain samples from 446 PWH compared to 67 HIV negative patients (Gelman et al.
T1223 2907-2913 Sentence denotes 2012).
T1224 2914-3018 Sentence denotes The subjects with HIV also expressed higher levels of interferon regulatory factor 1 (IRF1) transcripts.
T1225 3019-3200 Sentence denotes The idea that higher opioid peptide expression levels are neuroprotective has been supported in human studies and experimental animal models (Solbrig and Koob 2004; Sarkisyan et al.
T1226 3201-3217 Sentence denotes 2015; Nam et al.
T1227 3218-3285 Sentence denotes 2019) suggesting the reductions in PENK expression are deleterious.
T1228 3286-3474 Sentence denotes The effects of HIV Tat on expression levels of opioid peptide and receptor levels depend on the individual CNS region involved as well as levels of tat transgene expression (Fitting et al.
T1229 3475-3482 Sentence denotes 2010b).
T1230 3483-3780 Sentence denotes For example, while PDYN mRNA levels were significantly reduced in the hippocampus and striatum of Tat-expressing mice, POMC was only significantly reduced by Tat induction in the striatum and PENK mRNA levels in the hippocampus were affected by chronic (but not acute) Tat exposure (Fitting et al.
T1231 3781-3788 Sentence denotes 2010b).
T1232 3789-3947 Sentence denotes Thus, HIV may alter the endogenous opioid system by modifying the expression of opioid peptides and their receptors in a brain- and cell-type specific manner.
T1233 3948-4050 Sentence denotes The consequences of HIV-1-dependent alterations in the endogenous opioid system to HAND are uncertain.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T62 898-902 Phenotype denotes pain http://purl.obolibrary.org/obo/HP_0012531
T63 1058-1062 Phenotype denotes pain http://purl.obolibrary.org/obo/HP_0012531

2_test

Id Subject Object Predicate Lexical cue
32876803-8390660-62958297 689-693 8390660 denotes 1993
32876803-18443637-62958298 710-714 18443637 denotes 2008
32876803-20875476-62958299 723-727 20875476 denotes 2010
32876803-24076545-62958300 747-751 24076545 denotes 2013
32876803-20734417-62958301 1007-1011 20734417 denotes 2010
32876803-21208657-62958302 1029-1033 21208657 denotes 2011
32876803-22915176-62958303 1045-1049 22915176 denotes 2012
32876803-23374939-62958304 1089-1093 23374939 denotes 2013
32876803-22391864-62958305 1202-1206 22391864 denotes 2012
32876803-24405578-62958306 1223-1227 24405578 denotes 2014
32876803-24405578-62958307 1307-1311 24405578 denotes 2014
32876803-17553897-62958308 1368-1372 17553897 denotes 2007
32876803-24405578-62958309 1538-1542 24405578 denotes 2014
32876803-11506126-62958310 1979-1983 11506126 denotes 2001
32876803-18005034-62958311 2150-2154 18005034 denotes 2008
32876803-29084866-62958312 2694-2698 29084866 denotes 2017
32876803-24405578-62958313 2795-2799 24405578 denotes 2014
32876803-22391864-62958314 2907-2911 22391864 denotes 2012
32876803-15102496-62958315 3178-3182 15102496 denotes 2004
32876803-26029055-62958316 3201-3205 26029055 denotes 2015
32876803-31132785-62958317 3218-3222 31132785 denotes 2019