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PMC:7565482 / 3141-4953 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T10 76-80 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T11 478-489 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739
T12 523-527 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T13 783-791 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T14 1035-1044 Body_part denotes leukocyte http://purl.org/sig/ont/fma/fma62852
T15 1054-1057 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T16 1289-1297 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T17 1441-1445 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T18 1504-1508 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T19 1557-1565 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T20 1672-1676 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T20 392-400 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T21 497-505 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T22 655-663 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T23 729-737 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T24 772-780 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T25 1236-1244 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T26 1354-1362 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T27 1576-1584 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T28 1597-1613 Disease denotes viral infections http://purl.obolibrary.org/obo/MONDO_0005108
T29 1781-1797 Disease denotes viral infections http://purl.obolibrary.org/obo/MONDO_0005108

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T20 74-80 http://purl.obolibrary.org/obo/CL_0000084 denotes T cell
T21 118-125 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T22 200-205 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T23 412-415 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T24 521-527 http://purl.obolibrary.org/obo/CL_0000084 denotes T cell
T25 1029-1034 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T26 1340-1341 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T27 1424-1429 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T28 1439-1445 http://purl.obolibrary.org/obo/CL_0000084 denotes T cell
T29 1502-1508 http://purl.obolibrary.org/obo/CL_0000084 denotes T cell
T30 1615-1617 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T31 1638-1641 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T32 1670-1676 http://purl.obolibrary.org/obo/CL_0000084 denotes T cell

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
63 392-402 Species denotes SARS-CoV-2 Tax:2697049
64 497-507 Species denotes SARS-CoV-2 Tax:2697049
65 655-665 Species denotes SARS-CoV-2 Tax:2697049
66 707-720 Species denotes coronaviruses Tax:11118
67 729-737 Species denotes SARS-CoV Tax:694009
68 772-782 Species denotes SARS-CoV-2 Tax:2697049
69 1185-1198 Species denotes coronaviruses Tax:11118
70 1236-1244 Species denotes SARS-CoV Tax:694009
71 1354-1364 Species denotes SARS-CoV-2 Tax:2697049
72 1576-1586 Species denotes SARS-CoV-2 Tax:2697049
73 1029-1034 Species denotes human Tax:9606
74 40-48 Disease denotes infected MESH:D007239
75 1251-1255 Disease denotes MERS MESH:D018352
76 1597-1613 Disease denotes viral infections MESH:D001102
77 1781-1797 Disease denotes viral infections MESH:D001102

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T5 1597-1613 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infections
T6 1781-1797 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infections

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T18 0-126 Sentence denotes Ex-vivo immune analyses of samples from infected individuals can identify T cell responses to specific pathogens like viruses.
T19 127-258 Sentence denotes Such analyses can help to better understand the role of host immunity in virus control and to guide successful vaccine development.
T20 259-364 Sentence denotes However, they rely on the use of the correct recall antigens that can elicit specific responses in vitro.
T21 365-833 Sentence denotes The urgency of the current SARS-CoV-2 pandemic has led researchers to tackle the problem of screening the 10,000 amino acids of the SARS-CoV-2 proteome for T cell responses by selecting viral sequences based on different criteria: (i) bioinformatically predicted epitopes, (ii) homology of SARS-CoV-2 sequences with epitopes defined in other coronaviruses (mainly SARS-CoV) or (iii) selecting some specific SARS-CoV-2 proteins over others [5,7,9,11,14,15,16,17,18,19].
T22 834-891 Sentence denotes However, all these approaches have intrinsic limitations.
T23 892-1127 Sentence denotes Bioinformatic prediction tools are trained on sets of previously described epitopes, but since the available epitope repertoire for many human leukocyte antigen (HLA) alleles is limited, its prediction capacity is also limited [20,21].
T24 1128-1298 Sentence denotes Inferences based on epitope sequence homology with other coronaviruses are hampered because past studies on SARS-CoV-1 and MERS only included few selected viral proteins.
T25 1299-1455 Sentence denotes This is of concern, since screening only a part of the SARS-CoV-2 proteome will potentially miss an important portion of the virus-specific T cell response.
T26 1456-1619 Sentence denotes Indeed, recent data indicate the existence of T cell responses against structural and non-structural proteins [5,9] for SARS-CoV-2 and other viral infections [22].
T27 1620-1812 Sentence denotes Finally, no study has considered the existence of T cell responses to epitopes encoded by open-reading frames (ORF) in alternative frames, as reported for other viral infections [23,24,25,26].