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PMC:7278709 / 73597-76497 JSONTXT

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LitCovid_Glycan-Motif-Structure

Id Subject Object Predicate Lexical cue
T134 222-233 https://glytoucan.org/Structures/Glycans/G81533KY denotes sialic acid
T135 237-248 https://glytoucan.org/Structures/Glycans/G81533KY denotes sialic acid
T136 538-549 https://glytoucan.org/Structures/Glycans/G81533KY denotes sialic acid
T137 841-852 https://glytoucan.org/Structures/Glycans/G81533KY denotes sialic-acid
T138 2382-2393 https://glytoucan.org/Structures/Glycans/G81533KY denotes sialic acid

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T1141 835-852 CHEBI:26667;CHEBI:26667 denotes s non-sialic-acid
T1142 853-919 CHEBI:17089;CHEBI:17089 denotes binders, and so worthy of some comments. They included (iii) human
T1143 1120-1147 SO:0000417 denotes ded 100 (one had the highes
T1144 1492-1544 GO:0009986 denotes sidue, (vii) human cytochrome C with a maximum score
T1145 2283-2310 SO:0000417 denotes d a score of 100, and a res

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T504 28-36 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T505 193-201 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T506 307-315 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T507 349-355 Body_part denotes sugars http://purl.org/sig/ont/fma/fma82737
T508 390-398 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T509 433-439 Body_part denotes sugars http://purl.org/sig/ont/fma/fma82737
T510 580-590 Body_part denotes hemoglobin http://purl.org/sig/ont/fma/fma62293
T511 724-732 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T512 756-766 Body_part denotes tryptophan http://purl.org/sig/ont/fma/fma82767
T513 955-966 Body_part denotes tryptophans http://purl.org/sig/ont/fma/fma82767
T514 1086-1096 Body_part denotes tryptophan http://purl.org/sig/ont/fma/fma82767
T515 1205-1215 Body_part denotes fatty acid http://purl.org/sig/ont/fma/fma82738
T516 1566-1574 Body_part denotes tyrosine http://purl.org/sig/ont/fma/fma82768
T517 1744-1749 Body_part denotes sugar http://purl.org/sig/ont/fma/fma82737
T518 1887-1897 Body_part denotes tryptophan http://purl.org/sig/ont/fma/fma82767
T519 1995-2008 Body_part denotes phenylalanine http://purl.org/sig/ont/fma/fma82754
T520 2259-2266 Body_part denotes glycine http://purl.org/sig/ont/fma/fma82753
T521 2371-2378 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T522 2532-2537 Body_part denotes sugar http://purl.org/sig/ont/fma/fma82737

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T657 26-27 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T658 293-294 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T659 914-919 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T660 1026-1031 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T661 1032-1053 http://purl.obolibrary.org/obo/PR_000012621 denotes progesterone receptor
T662 1287-1288 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T663 1391-1396 http://purl.obolibrary.org/obo/NCBITaxon_9837 denotes camel
T664 1414-1415 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T665 1468-1469 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T666 1505-1510 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T667 1529-1530 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T668 1635-1640 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T669 1666-1667 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T670 1778-1779 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T671 1885-1886 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T672 1957-1958 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T673 2036-2037 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T674 2131-2132 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T675 2170-2175 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T676 2176-2187 http://purl.obolibrary.org/obo/PR_000007299 denotes prothrombin
T677 2193-2194 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T678 2285-2286 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T679 2305-2306 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T680 2449-2450 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T681 2646-2651 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes Human
T682 2736-2737 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T14373 20-25 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T55523 28-36 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T18276 129-134 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T51525 193-201 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T60193 222-233 Chemical denotes sialic acid http://purl.obolibrary.org/obo/CHEBI_26667
T23176 229-233 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T12378 237-248 Chemical denotes sialic acid http://purl.obolibrary.org/obo/CHEBI_26667
T16568 244-248 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T90164 287-292 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T13100 307-315 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T76684 390-398 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T10243 538-549 Chemical denotes sialic acid http://purl.obolibrary.org/obo/CHEBI_26667
T59011 545-549 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T57187 580-590 Chemical denotes hemoglobin http://purl.obolibrary.org/obo/CHEBI_35143
T95982 724-732 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T45345 756-766 Chemical denotes tryptophan http://purl.obolibrary.org/obo/CHEBI_16828|http://purl.obolibrary.org/obo/CHEBI_27897|http://purl.obolibrary.org/obo/CHEBI_57719|http://purl.obolibrary.org/obo/CHEBI_57912
T394 848-852 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T70287 1032-1044 Chemical denotes progesterone http://purl.obolibrary.org/obo/CHEBI_17026
T396 1086-1096 Chemical denotes tryptophan http://purl.obolibrary.org/obo/CHEBI_16828|http://purl.obolibrary.org/obo/CHEBI_27897|http://purl.obolibrary.org/obo/CHEBI_57719|http://purl.obolibrary.org/obo/CHEBI_57912
T78857 1205-1215 Chemical denotes fatty acid http://purl.obolibrary.org/obo/CHEBI_35366
T401 1211-1215 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T1179 1242-1247 Chemical denotes alpha http://purl.obolibrary.org/obo/CHEBI_30216
T61283 1338-1342 Chemical denotes NADH http://purl.obolibrary.org/obo/CHEBI_16908|http://purl.obolibrary.org/obo/CHEBI_57945
T50676 1343-1353 Chemical denotes ubiquinone http://purl.obolibrary.org/obo/CHEBI_46245
T49188 1511-1521 Chemical denotes cytochrome http://purl.obolibrary.org/obo/CHEBI_4056
T407 1566-1574 Chemical denotes tyrosine http://purl.obolibrary.org/obo/CHEBI_18186
T85033 1612-1619 Chemical denotes alcohol http://purl.obolibrary.org/obo/CHEBI_16236|http://purl.obolibrary.org/obo/CHEBI_30879
T410 1723-1730 Chemical denotes ethanol http://purl.obolibrary.org/obo/CHEBI_16236
T411 1887-1897 Chemical denotes tryptophan http://purl.obolibrary.org/obo/CHEBI_16828|http://purl.obolibrary.org/obo/CHEBI_27897|http://purl.obolibrary.org/obo/CHEBI_57719|http://purl.obolibrary.org/obo/CHEBI_57912
T86667 1995-2008 Chemical denotes phenylalanine http://purl.obolibrary.org/obo/CHEBI_28044|http://purl.obolibrary.org/obo/CHEBI_58095
T417 2156-2161 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T418 2259-2266 Chemical denotes glycine http://purl.obolibrary.org/obo/CHEBI_15428|http://purl.obolibrary.org/obo/CHEBI_29947|http://purl.obolibrary.org/obo/CHEBI_57305
T93453 2371-2378 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T20361 2382-2393 Chemical denotes sialic acid http://purl.obolibrary.org/obo/CHEBI_26667
T24020 2389-2393 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T93137 2546-2551 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T62197 2652-2663 Chemical denotes angiotensin http://purl.obolibrary.org/obo/CHEBI_48433

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T28 1205-1225 http://purl.obolibrary.org/obo/GO_0019395 denotes fatty acid oxidation
T29 1511-1521 http://purl.obolibrary.org/obo/GO_0045158 denotes cytochrome
T30 1511-1521 http://purl.obolibrary.org/obo/GO_0045157 denotes cytochrome
T31 1511-1521 http://purl.obolibrary.org/obo/GO_0045156 denotes cytochrome
T32 1511-1521 http://purl.obolibrary.org/obo/GO_0008121 denotes cytochrome

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T431 0-36 Sentence denotes 4.6 Predictions of group B proteins
T432 37-124 Sentence denotes Two kinds of potential true negative or false negative were distinguished in the study.
T433 125-356 Sentence denotes The group that appeared to do particularly well at predicting those proteins that do not binding sialic acid or sialic acid glycan was, perhaps not surprisingly, group B, i.e. those proteins not expected to bind any kind of sugars.
T434 357-679 Sentence denotes Out of the original sample of 10 proteins not expected to bind any kinds of sugars significantly, and that also confirmed that expectation, i.e. true negatives as far as predicting sialic acid binding is concerned, two (i) hemoglobin and (ii) trypsin precursor for which the prediction plots for which are shown in Fig. 4.
T435 680-893 Sentence denotes The others not shown are mostly quite large proteins containing more than 5 tryptophan residues (W) sites, for which the method still correctly predicted as non-sialic-acid binders, and so worthy of some comments.
T436 894-1162 Sentence denotes They included (iii) human ubiquitin C of 685 residues and no tryptophans (W) and no residue score exceeding 56, in contrast to (iv) human progesterone receptor of 933 residues of which 6 were tryptophan but none of which exceeded 100 (one had the highest score of 95).
T437 1163-1800 Sentence denotes The remaining true negative cases are (v) fatty acid oxidation complex subunit alpha FadB of Acinetobacter calcoaceticus of a substantial 717 residues, (vi) the mitochondrial NADH-ubiquinone oxidoreductase 75 kDa subunit of the camel, which comprised a substantial 733 residues but did notably not exceed a score of 77 for any residue, (vii) human cytochrome C with a maximum score of 87 for the second tyrosine (Y) in TGQAPGYSYTATAANKN, and (viii) alcohol dehydrogenase (human, 1A) that did not exceed a score of 81 for any residue despite the “concern” that ethanol having basic sugar-like features and so could, a priori, be marginal.
T438 1801-2074 Sentence denotes Perhaps unfairly included as rather small, (ix) proinsulin nonetheless does contain a tryptophan (W) which correctly did not exceed 100 and indeed only had a score of 72 in LLALLALWGPDPAAA; the phenylalanine (F) in GPDPAAAFVNQHLCG had a highest score of 81 in the sequence.
T439 2075-2402 Sentence denotes In the initial study, the case most closely approaching a false positive in this group was (x) human prothrombin with a substantial number of 622 residues, there was only one residue, glycine (G), that reached a score of 100, and a residue score should exceed 100 to classify the whole domain or protein as sialic acid binding.
T440 2403-2465 Sentence denotes It is possibly best declared as an example of a marginal case.
T441 2466-2645 Sentence denotes At the outset false positives were expected to appear in this non-sugar-binding group groups as the sample is increased, not least because of the preliminary nature of the method.
T442 2646-2900 Sentence denotes Human angiotensin converting enzyme type 2 (ACE2) was the first exception found and it is a significant exception in that it had two substantial regions 198–276 and 599–610 both exceeding scores of 100 throughout and peaking at substantial scores of 112.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1390 1032-1053 Gene denotes progesterone receptor Gene:5241
1391 2652-2688 Gene denotes angiotensin converting enzyme type 2 Gene:59272
1392 2690-2694 Gene denotes ACE2 Gene:59272
1393 914-919 Species denotes human Tax:9606
1394 1026-1031 Species denotes human Tax:9606
1395 1256-1283 Species denotes Acinetobacter calcoaceticus Tax:471
1396 1505-1510 Species denotes human Tax:9606
1397 1635-1640 Species denotes human Tax:9606
1398 2170-2175 Species denotes human Tax:9606
1399 2646-2651 Species denotes Human Tax:9606
1400 222-233 Chemical denotes sialic acid MESH:D019158
1401 237-255 Chemical denotes sialic acid glycan
1402 349-355 Chemical denotes sugars MESH:D000073893
1403 433-439 Chemical denotes sugars MESH:D000073893
1404 538-549 Chemical denotes sialic acid MESH:D019158
1405 756-766 Chemical denotes tryptophan MESH:D014364
1406 841-847 Chemical denotes sialic
1407 955-966 Chemical denotes tryptophans MESH:D014364
1408 1086-1096 Chemical denotes tryptophan MESH:D014364
1409 1887-1897 Chemical denotes tryptophan MESH:D014364
1410 1995-2008 Chemical denotes phenylalanine MESH:D010649
1411 2259-2266 Chemical denotes glycine MESH:D005998
1412 2382-2393 Chemical denotes sialic acid MESH:D019158
1413 2532-2537 Chemical denotes sugar MESH:D000073893