PMC:7443692 / 12169-13789
Annnotations
LitCovid-sample-MedDRA
| Id | Subject | Object | Predicate | Lexical cue | meddra_id |
|---|---|---|---|---|---|
| T10 | 397-407 | http://purl.bioontology.org/ontology/MEDDRA/10022891 | denotes | microscopy | http://purl.bioontology.org/ontology/MEDDRA/10069374 |
| T11 | 588-594 | http://purl.bioontology.org/ontology/MEDDRA/10022891 | denotes | weight | http://purl.bioontology.org/ontology/MEDDRA/10047890 |
LitCovid-sample-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T75 | 52-64 | Chemical | denotes | Glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T76 | 215-222 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T77 | 472-475 | Chemical | denotes | SDS | http://purl.obolibrary.org/obo/CHEBI_8984 |
| T78 | 527-534 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T79 | 825-832 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T80 | 851-860 | Chemical | denotes | glutamine | http://purl.obolibrary.org/obo/CHEBI_28300 |
| T81 | 884-892 | Chemical | denotes | N-glycan | http://purl.obolibrary.org/obo/CHEBI_59520 |
| T82 | 1094-1102 | Chemical | denotes | cysteine | http://purl.obolibrary.org/obo/CHEBI_15356 |
| T83 | 1165-1172 | Chemical | denotes | peptide | http://purl.obolibrary.org/obo/CHEBI_16670 |
| T84 | 1220-1227 | Chemical | denotes | peptide | http://purl.obolibrary.org/obo/CHEBI_16670 |
| T85 | 1283-1287 | Chemical | denotes | ions | http://purl.obolibrary.org/obo/CHEBI_24870 |
| T86 | 1341-1348 | Chemical | denotes | oxonium | http://purl.obolibrary.org/obo/CHEBI_29412 |
| T87 | 1349-1353 | Chemical | denotes | ions | http://purl.obolibrary.org/obo/CHEBI_24870 |
| T88 | 1377-1384 | Chemical | denotes | peptide | http://purl.obolibrary.org/obo/CHEBI_16670 |
| T89 | 1394-1398 | Chemical | denotes | ions | http://purl.obolibrary.org/obo/CHEBI_24870 |
| T90 | 1481-1485 | Chemical | denotes | ions | http://purl.obolibrary.org/obo/CHEBI_24870 |
| T91 | 1557-1563 | Chemical | denotes | fucose | http://purl.obolibrary.org/obo/CHEBI_33984 |
| T92 | 1607-1619 | Chemical | denotes | glycopeptide | http://purl.obolibrary.org/obo/CHEBI_24396 |
LitCovid-sample-PD-NCBITaxon
| Id | Subject | Object | Predicate | Lexical cue | ncbi_taxonomy_id |
|---|---|---|---|---|---|
| T46 | 35-45 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
| T47 | 94-99 | Species | denotes | Human | NCBItxid:9606 |
| T48 | 122-132 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
| T49 | 157-162 | Species | denotes | human | NCBItxid:9606 |
| T50 | 514-524 | Species | denotes | SARS-CoV-2 | NCBItxid:2697049 |
| T51 | 561-566 | Species | denotes | human | NCBItxid:9606 |
LitCovid-sample-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T61 | 105-168 | Sentence | denotes | (A) Sequences of SARS-CoV-2 S immunogen and soluble human ACE2. |
| T62 | 169-275 | Sentence | denotes | The N-terminal pyroglutamines for both mature protein monomers are bolded, underlined, and shown in green. |
| T63 | 276-362 | Sentence | denotes | The canonical N-linked glycosylation sequons are bolded, underlined, and shown in red. |
| T64 | 363-572 | Sentence | denotes | (B and C) Negative stain electron microscopy of the purified trimer (B) and Coomassie G-250-stained reducing SDS-PAGE gels (C) confirmed purity of the SARS-CoV-2 S protein trimer and of the soluble human ACE2. |
| T65 | 573-603 | Sentence | denotes | MWM, molecular weight markers. |
| T66 | 604-773 | Sentence | denotes | (D) A representative Step-HCD fragmentation spectrum from mass-spectrometry analysis of a tryptic digest of S annotated manually based on search results from pGlyco 2.2. |
| T67 | 774-866 | Sentence | denotes | This spectrum defines the N terminus of the mature protein monomer as (pyro-)glutamine 0014. |
| T68 | 867-1028 | Sentence | denotes | A representative N-glycan consistent with this annotation and our glycomics data (Figure 2) is overlaid by using the Symbol Nomenclature For Glycans (SNFG) code. |
| T69 | 1029-1065 | Sentence | denotes | This complex glycan occurs at N0017. |
| T70 | 1066-1185 | Sentence | denotes | Note, that as expected, the cysteine is carbamidomethylated, and the mass accuracy of the assigned peptide is 0.98 ppm. |
| T71 | 1186-1298 | Sentence | denotes | On the sequence of the N-terminal peptide and in the spectrum, the assigned b (blue) and y (red) ions are shown. |
| T72 | 1299-1452 | Sentence | denotes | In the spectrum, purple highlights glycan oxonium ions and green marks intact peptide fragment ions with various partial glycan sequences still attached. |
| T73 | 1453-1620 | Sentence | denotes | Note that the green-labeled ions allow for limited topology to be extracted including defining that the fucose is on the core and not the antennae of the glycopeptide. |
LitCovid-sample-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T33 | 35-45 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T34 | 122-132 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T35 | 514-524 | Disease | denotes | SARS-CoV-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-sample-UniProt
| Id | Subject | Object | Predicate | Lexical cue | uniprot_id |
|---|---|---|---|---|---|
| T1412 | 46-64 | Protein | denotes | Spike Glycoprotein | https://www.uniprot.org/uniprot/Q9QAS2|https://www.uniprot.org/uniprot/Q9QAR5|https://www.uniprot.org/uniprot/Q9QAQ8|https://www.uniprot.org/uniprot/Q9IW04|https://www.uniprot.org/uniprot/Q9IKD1|https://www.uniprot.org/uniprot/Q990M4|https://www.uniprot.org/uniprot/Q990M3|https://www.uniprot.org/uniprot/Q990M2|https://www.uniprot.org/uniprot/Q990M1|https://www.uniprot.org/uniprot/Q91AV1|https://www.uniprot.org/uniprot/Q91A26|https://www.uniprot.org/uniprot/Q8V436|https://www.uniprot.org/uniprot/Q8JSP8|https://www.uniprot.org/uniprot/Q8BB25|https://www.uniprot.org/uniprot/Q86623|https://www.uniprot.org/uniprot/Q85088|https://www.uniprot.org/uniprot/Q85087|https://www.uniprot.org/uniprot/Q80BV6|https://www.uniprot.org/uniprot/Q7TFB1|https://www.uniprot.org/uniprot/Q7TFA2|https://www.uniprot.org/uniprot/Q7TA19|https://www.uniprot.org/uniprot/Q7T6T3|https://www.uniprot.org/uniprot/Q7T696|https://www.uniprot.org/uniprot/Q77NC4|https://www.uniprot.org/uniprot/Q6TNF9|https://www.uniprot.org/uniprot/Q6R1L7|https://www.uniprot.org/uniprot/Q6QU82|https://www.uniprot.org/uniprot/Q6Q1S2|https://www.uniprot.org/uniprot/Q696Q6|https://www.uniprot.org/uniprot/Q66291|https://www.uniprot.org/uniprot/Q66290|https://www.uniprot.org/uniprot/Q66199|https://www.uniprot.org/uniprot/Q66177|https://www.uniprot.org/uniprot/Q66176|https://www.uniprot.org/uniprot/Q66174|https://www.uniprot.org/uniprot/Q65984|https://www.uniprot.org/uniprot/Q5MQD0|https://www.uniprot.org/uniprot/Q5I5X9|https://www.uniprot.org/uniprot/Q5DIY0|https://www.uniprot.org/uniprot/Q5DIX9|https://www.uniprot.org/uniprot/Q5DIX8|https://www.uniprot.org/uniprot/Q5DIX7|https://www.uniprot.org/uniprot/Q52PA3|https://www.uniprot.org/uniprot/Q4ZJS1|https://www.uniprot.org/uniprot/Q4U5G0|https://www.uniprot.org/uniprot/Q3T8J0|https://www.uniprot.org/uniprot/Q3LZX1|https://www.uniprot.org/uniprot/Q3I5J5|https://www.uniprot.org/uniprot/Q14EB0|https://www.uniprot.org/uniprot/Q0ZME7|https://www.uniprot.org/uniprot/Q0Q4F2|https://www.uniprot.org/uniprot/Q0Q475|https://www.uniprot.org/uniprot/Q0Q466|https://www.uniprot.org/uniprot/Q0GNB8|https://www.uniprot.org/uniprot/Q02385|https://www.uniprot.org/uniprot/Q02167|https://www.uniprot.org/uniprot/Q01977|https://www.uniprot.org/uniprot/Q008X4|https://www.uniprot.org/uniprot/P89344|https://www.uniprot.org/uniprot/P89343|https://www.uniprot.org/uniprot/P89342|https://www.uniprot.org/uniprot/P59594|https://www.uniprot.org/uniprot/P36334|https://www.uniprot.org/uniprot/P36300|https://www.uniprot.org/uniprot/P33470|https://www.uniprot.org/uniprot/P30208|https://www.uniprot.org/uniprot/P30207|https://www.uniprot.org/uniprot/P30206|https://www.uniprot.org/uniprot/P27662|https://www.uniprot.org/uniprot/P27655|https://www.uniprot.org/uniprot/P27277|https://www.uniprot.org/uniprot/P25194|https://www.uniprot.org/uniprot/P25193|https://www.uniprot.org/uniprot/P25192|https://www.uniprot.org/uniprot/P25191|https://www.uniprot.org/uniprot/P25190|https://www.uniprot.org/uniprot/P24413|https://www.uniprot.org/uniprot/P23052|https://www.uniprot.org/uniprot/P22432|https://www.uniprot.org/uniprot/P18450|https://www.uniprot.org/uniprot/P17662|https://www.uniprot.org/uniprot/P15777|https://www.uniprot.org/uniprot/P15423|https://www.uniprot.org/uniprot/P12722|https://www.uniprot.org/uniprot/P12651|https://www.uniprot.org/uniprot/P12650|https://www.uniprot.org/uniprot/P12647|https://www.uniprot.org/uniprot/P11225|https://www.uniprot.org/uniprot/P11224|https://www.uniprot.org/uniprot/P11223|https://www.uniprot.org/uniprot/P10033|https://www.uniprot.org/uniprot/P0DTC2|https://www.uniprot.org/uniprot/P07946|https://www.uniprot.org/uniprot/P05135|https://www.uniprot.org/uniprot/P05134|https://www.uniprot.org/uniprot/O90304|https://www.uniprot.org/uniprot/O39227|https://www.uniprot.org/uniprot/K9N5Q8|https://www.uniprot.org/uniprot/A3EXG6|https://www.uniprot.org/uniprot/A3EXD0|https://www.uniprot.org/uniprot/A3EX94 |
| T1513 | 52-64 | Protein | denotes | Glycoprotein | https://www.uniprot.org/uniprot/Q82706|https://www.uniprot.org/uniprot/Q82683|https://www.uniprot.org/uniprot/Q82020|https://www.uniprot.org/uniprot/Q787B5|https://www.uniprot.org/uniprot/Q77SK0|https://www.uniprot.org/uniprot/Q77N36|https://www.uniprot.org/uniprot/Q76G52|https://www.uniprot.org/uniprot/Q75T09|https://www.uniprot.org/uniprot/Q6X1D5|https://www.uniprot.org/uniprot/Q6X1D1|https://www.uniprot.org/uniprot/Q6TYA0|https://www.uniprot.org/uniprot/Q6E0W7|https://www.uniprot.org/uniprot/Q66T62|https://www.uniprot.org/uniprot/Q5VKP3|https://www.uniprot.org/uniprot/Q5VKN9|https://www.uniprot.org/uniprot/Q5K2K4|https://www.uniprot.org/uniprot/Q5IX93|https://www.uniprot.org/uniprot/Q5IX92|https://www.uniprot.org/uniprot/Q5IX91|https://www.uniprot.org/uniprot/Q5IX90|https://www.uniprot.org/uniprot/Q5IX89|https://www.uniprot.org/uniprot/Q5IX88|https://www.uniprot.org/uniprot/Q5IX87|https://www.uniprot.org/uniprot/Q5GA86|https://www.uniprot.org/uniprot/Q58FH1|https://www.uniprot.org/uniprot/Q4VKV3|https://www.uniprot.org/uniprot/Q4F900|https://www.uniprot.org/uniprot/Q49LL3|https://www.uniprot.org/uniprot/Q49IU2|https://www.uniprot.org/uniprot/Q49IU1|https://www.uniprot.org/uniprot/Q49IT9|https://www.uniprot.org/uniprot/Q49IT8|https://www.uniprot.org/uniprot/Q49AV0|https://www.uniprot.org/uniprot/Q0GBY1|https://www.uniprot.org/uniprot/Q0GBX6|https://www.uniprot.org/uniprot/Q08089|https://www.uniprot.org/uniprot/P32595|https://www.uniprot.org/uniprot/P32550|https://www.uniprot.org/uniprot/P19462|https://www.uniprot.org/uniprot/P16288|https://www.uniprot.org/uniprot/P15199|https://www.uniprot.org/uniprot/P13180|https://www.uniprot.org/uniprot/P0C572|https://www.uniprot.org/uniprot/P08667|https://www.uniprot.org/uniprot/P08163|https://www.uniprot.org/uniprot/P07923|https://www.uniprot.org/uniprot/P04884|https://www.uniprot.org/uniprot/P04883|https://www.uniprot.org/uniprot/P04882|https://www.uniprot.org/uniprot/P03524|https://www.uniprot.org/uniprot/P03522|https://www.uniprot.org/uniprot/O92284|https://www.uniprot.org/uniprot/O56677|https://www.uniprot.org/uniprot/O10236|https://www.uniprot.org/uniprot/J7HBH4|https://www.uniprot.org/uniprot/D8V075|https://www.uniprot.org/uniprot/A7WNB3|https://www.uniprot.org/uniprot/A4UHQ6|https://www.uniprot.org/uniprot/A4UHQ1|https://www.uniprot.org/uniprot/A3RM22|https://www.uniprot.org/uniprot/A3F5R8|https://www.uniprot.org/uniprot/A3F5R3|https://www.uniprot.org/uniprot/A3F5Q8|https://www.uniprot.org/uniprot/A3F5N3|https://www.uniprot.org/uniprot/A3F5M3|https://www.uniprot.org/uniprot/A3F5L8 |
| T1579 | 100-104 | Protein | denotes | ACE2 | https://www.uniprot.org/uniprot/Q9UFZ6 |
| T1580 | 163-167 | Protein | denotes | ACE2 | https://www.uniprot.org/uniprot/Q9UFZ6 |
| T1581 | 525-534 | 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 |
| T1614 | 567-571 | Protein | denotes | ACE2 | https://www.uniprot.org/uniprot/Q9UFZ6 |
| T1615 | 1209-1227 | Protein | denotes | N-terminal peptide | https://www.uniprot.org/uniprot/Q9DB14|https://www.uniprot.org/uniprot/Q9D2P6|https://www.uniprot.org/uniprot/Q9CYP0|https://www.uniprot.org/uniprot/Q9BS38|https://www.uniprot.org/uniprot/Q8CCZ3|https://www.uniprot.org/uniprot/Q6FHD0|https://www.uniprot.org/uniprot/Q06A28|https://www.uniprot.org/uniprot/P27682|https://www.uniprot.org/uniprot/P18844|https://www.uniprot.org/uniprot/P12961|https://www.uniprot.org/uniprot/P05408|https://www.uniprot.org/uniprot/P01165|https://www.uniprot.org/uniprot/P01164|https://www.uniprot.org/uniprot/A5HAK0|https://www.uniprot.org/uniprot/A5A6J6 |
LitCovid-sample-PD-FMA
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T55 | 52-64 | Body_part | denotes | Glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T56 | 215-222 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T57 | 527-534 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T58 | 825-832 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T59 | 851-860 | Body_part | denotes | glutamine | http://purl.org/sig/ont/fma/fma82752 |
| T60 | 1094-1102 | Body_part | denotes | cysteine | http://purl.org/sig/ont/fma/fma82751 |
| T61 | 1557-1563 | Body_part | denotes | fucose | http://purl.org/sig/ont/fma/fma82790 |
| T62 | 1607-1619 | Body_part | denotes | glycopeptide | http://purl.org/sig/ont/fma/fma82784 |
LitCovid-sample-PD-MAT
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T2 | 1591-1599 | http://purl.obolibrary.org/obo/MAT_0000086 | denotes | antennae |
LitCovid-sample-PD-GO-BP-0
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T41 | 299-312 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |
LitCovid-sample-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T39 | 299-312 | http://purl.obolibrary.org/obo/GO_0070085 | denotes | glycosylation |