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PMC:7111504 / 3451-5931 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
57 38-46 Species denotes SARS CoV Tax:694009
64 622-627 Gene denotes HLA-A Gene:3105
65 689-692 Gene denotes CD8 Gene:925
66 698-701 Gene denotes CD4 Gene:920
67 213-218 Species denotes human Tax:9606
68 292-301 Species denotes 2019-nCoV Tax:2697049
69 487-495 Species denotes SARS-CoV Tax:694009
84 920-925 Gene denotes HLA-A Gene:3105
85 1756-1761 Gene denotes HLA-B Gene:3106
86 1802-1807 Gene denotes HLA-A Gene:3105
87 1966-1971 Gene denotes HLA-A Gene:3105
88 2028-2036 Gene denotes HLA-DRB1 Gene:3123
89 2096-2101 Gene denotes HLA-A Gene:3105
90 2142-2147 Gene denotes HLA-A Gene:3105
91 2207-2212 Gene denotes HLA-A Gene:3105
92 2267-2274 Gene denotes HLA-DRA Gene:3122
93 2282-2286 Gene denotes DRB1 Gene:3123
94 2341-2349 Gene denotes HLA-DRB1 Gene:3123
95 2408-2416 Gene denotes HLA-DRB1 Gene:3123
96 828-837 Species denotes 2019-nCoV Tax:2697049
97 933-974 Disease denotes AFFGMSRIGMEVTPSGTW AFFGMSRIGMEVTPSGTW N MESH:C536108
100 738-747 Species denotes 2019-nCoV Tax:2697049
101 795-803 Species denotes SARS-CoV Tax:694009
103 2425-2433 Species denotes SARS-CoV Tax:694009

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T49 38-46 SP_10 denotes SARS CoV
T50 47-58 CHEBI:60816;CHEBI:60816 denotes immunogenic
T51 85-93 BV_9 denotes epitopes
T52 190-196 CL:0000084;BV_23 denotes T cell
T53 197-203 BV_23 denotes assays
T54 213-218 SP_6;NCBITaxon:9606 denotes human
T55 231-239 NCBITaxon:1 denotes organism
T56 292-301 SP_7 denotes 2019-nCoV
T57 302-321 SO:0000236 denotes open reading frames
T58 323-327 SO:0000236 denotes ORFs
T59 487-495 SP_10 denotes SARS-CoV
T60 575-582 SO:0001023 denotes alleles
T61 622-627 PR:000002009 denotes HLA-A
T62 698-701 PR:000001004 denotes CD4
T63 703-710 CL:0000084 denotes T cells
T64 738-747 SP_7 denotes 2019-nCoV
T65 783-794 CHEBI:60816;CHEBI:60816 denotes immunogenic
T66 795-803 SP_10 denotes SARS-CoV
T67 2425-2433 SP_10 denotes SARS-CoV
T68 2435-2447 SP_10 denotes Severe acute
T69 2448-2459 SP_10;UBERON:0001004 denotes respiratory
T70 2460-2480 SP_10 denotes syndrome coronavirus
T90647 38-46 SP_10 denotes SARS CoV
T91789 47-58 CHEBI:60816;CHEBI:60816 denotes immunogenic
T36642 85-93 BV_9 denotes epitopes
T61606 190-196 CL:0000084;BV_23 denotes T cell
T92404 197-203 BV_23 denotes assays
T59646 213-218 SP_6;NCBITaxon:9606 denotes human
T46254 231-239 NCBITaxon:1 denotes organism
T44920 292-301 SP_7 denotes 2019-nCoV
T21846 302-321 SO:0000236 denotes open reading frames
T65235 323-327 SO:0000236 denotes ORFs
T32217 487-495 SP_10 denotes SARS-CoV
T71600 575-582 SO:0001023 denotes alleles
T25480 622-627 PR:000002009 denotes HLA-A
T8945 698-701 PR:000001004 denotes CD4
T43204 703-710 CL:0000084 denotes T cells
T24098 738-747 SP_7 denotes 2019-nCoV
T68353 783-794 CHEBI:60816;CHEBI:60816 denotes immunogenic
T10691 795-803 SP_10 denotes SARS-CoV
T43844 2425-2433 SP_10 denotes SARS-CoV
T38738 2435-2447 SP_10 denotes Severe acute
T69357 2448-2459 SP_10;UBERON:0001004 denotes respiratory
T49984 2460-2480 SP_10 denotes syndrome coronavirus

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T6 192-196 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T7 571-574 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T8 622-625 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T9 705-710 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T10 906-918 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T11 920-923 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T12 975-982 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T13 1020-1023 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T14 1080-1087 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T15 1089-1092 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T16 1144-1151 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T17 1189-1192 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T18 1239-1242 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T19 1292-1299 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T20 1340-1347 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T21 1385-1388 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T22 1435-1438 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T23 1490-1497 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T24 1535-1538 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T25 1595-1602 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T26 1604-1607 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T27 1654-1661 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T28 1697-1700 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T29 1747-1754 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T30 1756-1759 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T31 1793-1800 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T32 1802-1805 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T33 1843-1855 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T34 1867-1870 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T35 1871-1873 Body_part denotes A2 http://purl.org/sig/ont/fma/fma66595
T36 1902-1914 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T37 1926-1929 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T38 1930-1932 Body_part denotes A2 http://purl.org/sig/ont/fma/fma66595
T39 1957-1964 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T40 1966-1969 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T41 2019-2026 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T42 2028-2031 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T43 2072-2084 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T44 2096-2099 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T45 2133-2140 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T46 2142-2145 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T47 2183-2195 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T48 2207-2210 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T49 2258-2265 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T50 2267-2270 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T51 2332-2339 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T52 2341-2344 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T53 2399-2406 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T54 2408-2411 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T6 38-42 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T7 487-495 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T8 795-803 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T9 2271-2274 Disease denotes DRA http://purl.obolibrary.org/obo/MONDO_0019440
T10 2425-2433 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T11 2435-2468 Disease denotes Severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T49 59-67 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T50 129-137 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T51 190-196 http://purl.obolibrary.org/obo/CL_0000084 denotes T cell
T52 213-221 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human as
T53 231-239 http://purl.obolibrary.org/obo/OBI_0100026 denotes organism
T54 231-239 http://purl.obolibrary.org/obo/UBERON_0000468 denotes organism
T55 259-260 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T56 349-357 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T57 429-437 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T58 530-538 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T59 626-627 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T60 689-692 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T61 698-701 http://purl.obolibrary.org/obo/PR_000001004 denotes CD4
T62 703-710 http://purl.obolibrary.org/obo/CL_0000084 denotes T cells
T63 748-756 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T64 804-812 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T65 897-905 http://purl.obolibrary.org/obo/UBERON_0000158 denotes Membrane
T66 924-925 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T67 1024-1025 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T68 1193-1194 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T69 1243-1244 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T70 1389-1390 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T71 1439-1440 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T72 1539-1540 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T73 1701-1702 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T74 1760-1761 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T75 1806-1807 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T76 1871-1873 http://purl.obolibrary.org/obo/CLO_0001562 denotes A2
T77 1930-1932 http://purl.obolibrary.org/obo/CLO_0001562 denotes A2
T78 1970-1971 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T79 2100-2101 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T80 2146-2147 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T81 2211-2212 http://purl.obolibrary.org/obo/CLO_0001020 denotes A

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T17 59-67 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T18 129-137 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T19 349-357 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T20 429-437 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T21 530-538 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T22 663-665 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T23 748-756 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T24 804-812 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T25 906-918 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T26 975-982 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T27 1080-1087 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T28 1099-1101 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T29 1144-1151 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T30 1292-1299 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T31 1340-1347 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T32 1490-1497 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T33 1595-1602 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T34 1654-1661 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T35 1747-1754 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T36 1793-1800 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T37 1843-1855 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T38 1902-1914 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T39 1957-1964 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T40 2019-2026 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T41 2072-2084 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T42 2133-2140 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T43 2183-2195 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T44 2258-2265 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T45 2332-2339 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T46 2399-2406 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T27 0-111 Sentence denotes Identification of 28 exact matches to SARS CoV immunogenic peptides by screening all epitopes deposited in IEDB
T28 112-240 Sentence denotes We collected all peptides in IEDB ( 3, as of 13-02-2020) reported positive in T cell assays and have human as the host organism.
T29 241-386 Sentence denotes We then conducted a local sequence alignment of 10 2019-nCoV open reading frames (ORFs) against 35,225 IEDB peptides, and found 28 exact matches.
T30 387-523 Sentence denotes Surprisingly, all identical hits (against peptides having sequence length greater than 3) were from SARS-CoV ( Table 1, Data Table 1 4).
T31 524-724 Sentence denotes These peptides have been shown to bind various HLA alleles, although with higher tendency towards HLA-A:02:01, from both class I and class II, and can be target for CD8+ and CD4+ T cells respectively.
T32 725-733 Sentence denotes Table 1.
T33 735-813 Sentence denotes 28 2019-nCoV peptides having exact matches with immunogenic SARS-CoV peptides.
T34 814-872 Sentence denotes IEDB.peptide 2019-nCoV.pattern Antigen.Name Allele.Name
T35 873-932 Sentence denotes TLACFVLAAV TLACFVLAAV Membrane glycoprotein HLA-A *02:01
T36 933-982 Sentence denotes AFFGMSRIGMEVTPSGTW AFFGMSRIGMEVTPSGTW N protein
T37 983-1032 Sentence denotes ALNTPKDHI ALNTPKDHI Nucleoprotein HLA-A *02:01
T38 1033-1101 Sentence denotes AQFAPSASAFFGMSR AQFAPSASAFFGMSR nucleocapsid protein HLA class II
T39 1102-1151 Sentence denotes AQFAPSASAFFGMSRIGM AQFAPSASAFFGMSRIGM N protein
T40 1152-1201 Sentence denotes GMSRIGMEV GMSRIGMEV Nucleoprotein HLA-A *02:01
T41 1202-1251 Sentence denotes ILLNKHIDA ILLNKHIDA Nucleoprotein HLA-A *02:01
T42 1252-1299 Sentence denotes IRQGTDYKHWPQIAQFA IRQGTDYKHWPQIAQFA N protein
T43 1300-1347 Sentence denotes KHWPQIAQFAPSASAFF KHWPQIAQFAPSASAFF N protein
T44 1348-1397 Sentence denotes LALLLLDRL LALLLLDRL Nucleoprotein HLA-A *02:01
T45 1398-1447 Sentence denotes LLLDRLNQL LLLDRLNQL Nucleoprotein HLA-A *02:01
T46 1448-1497 Sentence denotes LLNKHIDAYKTFPPTEPK LLNKHIDAYKTFPPTEPK N protein
T47 1498-1547 Sentence denotes LQLPQGTTL LQLPQGTTL Nucleoprotein HLA-A *02:01
T48 1548-1615 Sentence denotes RRPQGLPNNTASWFT RRPQGLPNNTASWFT nucleocapsid protein HLA class I
T49 1616-1661 Sentence denotes YKTFPPTEPKKDKKKK YKTFPPTEPKKDKKKK N protein
T50 1662-1709 Sentence denotes ILLNKHID ILLNKHID Nucleoprotein HLA-A *02:01
T51 1710-1768 Sentence denotes MEVTPSGTWL MEVTPSGTWL nucleocapsid protein HLA-B *40:01
T52 1769-1814 Sentence denotes ALNTLVKQL ALNTLVKQL S protein HLA-A *02:01
T53 1815-1873 Sentence denotes FIAGLIAIV FIAGLIAIV Spike glycoprotein precursor HLA-A2
T54 1874-1932 Sentence denotes LITGRLQSL LITGRLQSL Spike glycoprotein precursor HLA-A2
T55 1933-1978 Sentence denotes NLNESLIDL NLNESLIDL S protein HLA-A *02:01
T56 1979-2043 Sentence denotes QALNTLVKQLSSNFGAI QALNTLVKQLSSNFGAI S protein HLA-DRB1 *04:01
T57 2044-2108 Sentence denotes RLNEVAKNL RLNEVAKNL Spike glycoprotein precursor HLA-A *02:01
T58 2109-2154 Sentence denotes VLNDILSRL VLNDILSRL S protein HLA-A *02:01
T59 2155-2219 Sentence denotes VVFLHVTYV VVFLHVTYV Spike glycoprotein precursor HLA-A *02:01
T60 2220-2293 Sentence denotes GAALQIPFAMQMAYRF GAALQIPFAMQMAYRF S protein HLA-DRA *01:01/DRB1 *07:01
T61 2294-2356 Sentence denotes MAYRFNGIGVTQNVLY MAYRFNGIGVTQNVLY S protein HLA-DRB1 *04:01
T62 2357-2423 Sentence denotes QLIRAAEIRASANLAATK QLIRAAEIRASANLAATK S protein HLA-DRB1 *04:01
T63 2424-2434 Sentence denotes *SARS-CoV:
T64 2435-2480 Sentence denotes Severe acute respiratory syndrome coronavirus

MyTest

Id Subject Object Predicate Lexical cue
32269766-30357391-30420970 148-149 30357391 denotes 3

2_test

Id Subject Object Predicate Lexical cue
32269766-30357391-30420970 148-149 30357391 denotes 3