PMC:7443692 / 15374-17328
Annnotations
LitCovid-sample-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T107 | 178-185 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T108 | 352-355 | Chemical | denotes | ion | http://purl.obolibrary.org/obo/CHEBI_24870 |
| T109 | 409-417 | Chemical | denotes | N-glycan | http://purl.obolibrary.org/obo/CHEBI_59520 |
| T110 | 475-482 | Chemical | denotes | glycans | http://purl.obolibrary.org/obo/CHEBI_18154 |
| T111 | 572-580 | Chemical | denotes | N-glycan | http://purl.obolibrary.org/obo/CHEBI_59520 |
| T112 | 719-726 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T113 | 1277-1284 | Chemical | denotes | mannose | http://purl.obolibrary.org/obo/CHEBI_37684 |
| T114 | 1294-1301 | Chemical | denotes | glycans | http://purl.obolibrary.org/obo/CHEBI_18154 |
| T115 | 1552-1559 | Chemical | denotes | glycans | http://purl.obolibrary.org/obo/CHEBI_18154 |
| T116 | 1746-1752 | Chemical | denotes | hexose | http://purl.obolibrary.org/obo/CHEBI_18133 |
| T117 | 1757-1763 | Chemical | denotes | fucose | http://purl.obolibrary.org/obo/CHEBI_33984 |
| T118 | 1768-1774 | Chemical | denotes | Neu5Ac | http://purl.obolibrary.org/obo/CHEBI_17012|http://purl.obolibrary.org/obo/CHEBI_75133 |
LitCovid-sample-PD-NCBITaxon
| Id | Subject | Object | Predicate | Lexical cue | ncbi_taxonomy_id |
|---|---|---|---|---|---|
| T55 | 126-136 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
| T56 | 165-175 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
| T57 | 706-716 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
| T58 | 1104-1112 | Species | denotes | SARS-CoV | NCBItxid:694009 |
| T59 | 1181-1191 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
LitCovid-sample-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T85 | 0-138 | Sentence | denotes | Figure 2 Glycomics-Informed Glycoproteomics Reveals Substantial Site-Specific Microheterogeneity of N-linked Glycosylation on SARS-CoV-2 S |
| T86 | 139-242 | Sentence | denotes | (A) Glycans released from SARS-CoV-2 S protein trimer immunogen were permethylated and analyzed by MSn. |
| T87 | 243-364 | Sentence | denotes | Structures were assigned and grouped by type and structural features, and prevalence was determined based on ion current. |
| T88 | 365-423 | Sentence | denotes | The pie chart shows basic division by broad N-glycan type. |
| T89 | 424-492 | Sentence | denotes | The bar graph provides additional detail about the glycans detected. |
| T90 | 493-666 | Sentence | denotes | The most abundant structure with a unique categorization by glycomics for each N-glycan type in the pie chart, or above each feature category in the bar graph, is indicated. |
| T91 | 667-891 | Sentence | denotes | (B–E) Glycopeptides were prepared from SARS-CoV-2 S protein trimer immunogen by using multiple combinations of proteases, analyzed by LC-MSn, and the resulting data were searched by using several different software packages. |
| T92 | 892-1014 | Sentence | denotes | Four representative sites of N-linked glycosylation with specific features of interest were chosen and are presented here. |
| T93 | 1015-1243 | Sentence | denotes | N0074 (B) and N0149 (C) are shown that occur in variable insert regions of S compared to SARS-CoV and other related coronaviruses, and there are emerging variants of SARS-CoV-2 that disrupt these two sites of glycosylation in S. |
| T94 | 1244-1302 | Sentence | denotes | N0234 (D) contains the most high-mannose N-linked glycans. |
| T95 | 1303-1453 | Sentence | denotes | N0801 (D) is an example of glycosylation in the S2 region of the immunogen and displays a high degree of hybrid glycosylation compared to other sites. |
| T96 | 1454-1536 | Sentence | denotes | The abundance of each composition is graphed in terms of assigned spectral counts. |
| T97 | 1537-1657 | Sentence | denotes | Representative glycans (as determined by glycomics analysis) for several abundant compositions are shown in SNFG format. |
| T98 | 1658-1789 | Sentence | denotes | The abbreviations used here and throughout the manuscript are as follows: N, HexNAc; H, hexose; F, fucose; A, Neu5Ac; S, sulfation. |
| T99 | 1790-1954 | Sentence | denotes | Note that the graphs for the other 18 sites and other graphs grouping the microheterogeneity observed by other properties are presented in Supplemental Information. |
LitCovid-sample-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T39 | 126-136 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T40 | 165-175 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T41 | 706-716 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T42 | 1104-1112 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T43 | 1181-1191 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-sample-UniProt
| Id | Subject | Object | Predicate | Lexical cue | uniprot_id |
|---|---|---|---|---|---|
| T1658 | 176-185 | Protein | denotes | S protein | https://www.uniprot.org/uniprot/Q9UIP0|https://www.uniprot.org/uniprot/Q9UIN9|https://www.uniprot.org/uniprot/Q9UIN8|https://www.uniprot.org/uniprot/Q9UIN7|https://www.uniprot.org/uniprot/Q9UIN6|https://www.uniprot.org/uniprot/Q9UBH8|https://www.uniprot.org/uniprot/Q9NRH8|https://www.uniprot.org/uniprot/Q9NRH7|https://www.uniprot.org/uniprot/Q9NRH6|https://www.uniprot.org/uniprot/Q9NRH5|https://www.uniprot.org/uniprot/Q9NRH4|https://www.uniprot.org/uniprot/Q9NPG5|https://www.uniprot.org/uniprot/Q9NPE0|https://www.uniprot.org/uniprot/Q9NP52|https://www.uniprot.org/uniprot/Q95IF9|https://www.uniprot.org/uniprot/Q8N5P3|https://www.uniprot.org/uniprot/Q8IZU6|https://www.uniprot.org/uniprot/Q8IZU5|https://www.uniprot.org/uniprot/Q8IZU4|https://www.uniprot.org/uniprot/Q86Z04|https://www.uniprot.org/uniprot/Q7YR44|https://www.uniprot.org/uniprot/Q7LA71|https://www.uniprot.org/uniprot/Q7LA70|https://www.uniprot.org/uniprot/Q5STD2|https://www.uniprot.org/uniprot/Q5SQ85|https://www.uniprot.org/uniprot/Q1XI16|https://www.uniprot.org/uniprot/Q1XI12|https://www.uniprot.org/uniprot/Q15517|https://www.uniprot.org/uniprot/O43509|https://www.uniprot.org/uniprot/O19084|https://www.uniprot.org/uniprot/B0UYZ7|https://www.uniprot.org/uniprot/B0S7V2|https://www.uniprot.org/uniprot/A5A6L9 |
| T1691 | 717-726 | Protein | denotes | S protein | https://www.uniprot.org/uniprot/Q9UIP0|https://www.uniprot.org/uniprot/Q9UIN9|https://www.uniprot.org/uniprot/Q9UIN8|https://www.uniprot.org/uniprot/Q9UIN7|https://www.uniprot.org/uniprot/Q9UIN6|https://www.uniprot.org/uniprot/Q9UBH8|https://www.uniprot.org/uniprot/Q9NRH8|https://www.uniprot.org/uniprot/Q9NRH7|https://www.uniprot.org/uniprot/Q9NRH6|https://www.uniprot.org/uniprot/Q9NRH5|https://www.uniprot.org/uniprot/Q9NRH4|https://www.uniprot.org/uniprot/Q9NPG5|https://www.uniprot.org/uniprot/Q9NPE0|https://www.uniprot.org/uniprot/Q9NP52|https://www.uniprot.org/uniprot/Q95IF9|https://www.uniprot.org/uniprot/Q8N5P3|https://www.uniprot.org/uniprot/Q8IZU6|https://www.uniprot.org/uniprot/Q8IZU5|https://www.uniprot.org/uniprot/Q8IZU4|https://www.uniprot.org/uniprot/Q86Z04|https://www.uniprot.org/uniprot/Q7YR44|https://www.uniprot.org/uniprot/Q7LA71|https://www.uniprot.org/uniprot/Q7LA70|https://www.uniprot.org/uniprot/Q5STD2|https://www.uniprot.org/uniprot/Q5SQ85|https://www.uniprot.org/uniprot/Q1XI16|https://www.uniprot.org/uniprot/Q1XI12|https://www.uniprot.org/uniprot/Q15517|https://www.uniprot.org/uniprot/O43509|https://www.uniprot.org/uniprot/O19084|https://www.uniprot.org/uniprot/B0UYZ7|https://www.uniprot.org/uniprot/B0S7V2|https://www.uniprot.org/uniprot/A5A6L9 |
LitCovid-sample-PD-IDO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T48 | 64-68 | http://purl.obolibrary.org/obo/BFO_0000029 | denotes | Site |
| T49 | 912-917 | http://purl.obolibrary.org/obo/BFO_0000029 | denotes | sites |
| T50 | 1215-1220 | http://purl.obolibrary.org/obo/BFO_0000029 | denotes | sites |
| T51 | 1447-1452 | http://purl.obolibrary.org/obo/BFO_0000029 | denotes | sites |
| T52 | 1828-1833 | http://purl.obolibrary.org/obo/BFO_0000029 | denotes | sites |
LitCovid-sample-PD-FMA
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T66 | 178-185 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T67 | 673-686 | Body_part | denotes | Glycopeptides | http://purl.org/sig/ont/fma/fma82784 |
| T68 | 719-726 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T69 | 1277-1284 | Body_part | denotes | mannose | http://purl.org/sig/ont/fma/fma82801 |
| T70 | 1757-1763 | Body_part | denotes | fucose | http://purl.org/sig/ont/fma/fma82790 |
LitCovid-sample-PD-GO-BP-0
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T46 | 109-122 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | Glycosylation |
| T47 | 930-943 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
| T48 | 1224-1237 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
| T49 | 1330-1343 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
| T50 | 1415-1428 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
| T51 | 1779-1788 | http://purl.obolibrary.org/obo/GO_0051923 | denotes | sulfation |
LitCovid-sample-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T43 | 109-122 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | Glycosylation |
| T44 | 930-943 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
| T45 | 1224-1237 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
| T46 | 1330-1343 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
| T47 | 1415-1428 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
| T48 | 1779-1788 | http://purl.obolibrary.org/obo/GO_0051923 | denotes | sulfation |
LitCovid-sample-Glycan
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T2 | 1277-1284 | http://rdf.glyconavi.org/CarTNa/CarTNa218/trivialname | denotes | mannose |
| T3 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G30059ZJ | denotes | HexNAc |
| T4 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G46412HK | denotes | HexNAc |
| T5 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G37373JE | denotes | HexNAc |
| T6 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G80366GS | denotes | HexNAc |
| T7 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G92326AT | denotes | HexNAc |
| T8 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G06461TM | denotes | HexNAc |
| T9 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G08775HA | denotes | HexNAc |
| T10 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G14893NV | denotes | HexNAc |
| T11 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G03646SE | denotes | HexNAc |
| T12 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G14093GS | denotes | HexNAc |
| T13 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G68384AJ | denotes | HexNAc |
| T14 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G87935EZ | denotes | HexNAc |
| T15 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G03811WP | denotes | HexNAc |
| T16 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G88386LN | denotes | HexNAc |
| T17 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G88431DQ | denotes | HexNAc |
| T18 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G31282CB | denotes | HexNAc |
| T19 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G23331KR | denotes | HexNAc |
| T20 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G81363VR | denotes | HexNAc |
| T21 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G80364TX | denotes | HexNAc |
| T22 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G68910GL | denotes | HexNAc |
| T23 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G60562UB | denotes | HexNAc |
| T24 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G15814MG | denotes | HexNAc |
| T25 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G58082FV | denotes | HexNAc |
| T26 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G55084SZ | denotes | HexNAc |
| T27 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G76017CU | denotes | HexNAc |
| T28 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G63748FT | denotes | HexNAc |
| T29 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G39298OQ | denotes | HexNAc |
| T30 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G55196OZ | denotes | HexNAc |
| T31 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G90088PE | denotes | HexNAc |
| T32 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G04505NJ | denotes | HexNAc |
| T33 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G84289JA | denotes | HexNAc |
| T34 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G64769SU | denotes | HexNAc |
| T35 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G99324LT | denotes | HexNAc |
| T36 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G18156HN | denotes | HexNAc |
| T37 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G48853ER | denotes | HexNAc |
| T38 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G17057LD | denotes | HexNAc |
| T39 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G54482BE | denotes | HexNAc |
| T40 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G42038AH | denotes | HexNAc |
| T41 | 1735-1741 | https://glytoucan.org/Structures/Glycans/G20606OJ | denotes | HexNAc |
| T42 | 1768-1774 | https://glytoucan.org/Structures/Glycans/G76685HR | denotes | Neu5Ac |
| T43 | 1768-1774 | https://glytoucan.org/Structures/Glycans/G65881BF | denotes | Neu5Ac |
| T44 | 1768-1774 | https://glytoucan.org/Structures/Glycans/G82702MH | denotes | Neu5Ac |
| T45 | 1768-1774 | https://glytoucan.org/Structures/Glycans/G51494MY | denotes | Neu5Ac |
| T46 | 1768-1774 | https://glytoucan.org/Structures/Glycans/G37109XL | denotes | Neu5Ac |
| T47 | 1768-1774 | https://glytoucan.org/Structures/Glycans/G47427MX | denotes | Neu5Ac |
| T48 | 1768-1774 | https://glytoucan.org/Structures/Glycans/G89927NS | denotes | Neu5Ac |