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PMC:7040011 / 1596-5017 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T7 209-213 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T8 307-314 Body_part denotes Genomes http://purl.org/sig/ont/fma/fma84116
T9 438-444 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T10 546-556 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T11 654-660 Body_part denotes lysine http://purl.org/sig/ont/fma/fma82758
T12 669-677 Body_part denotes tyrosine http://purl.org/sig/ont/fma/fma82768
T13 751-758 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T14 1050-1057 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T15 1150-1157 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T16 2938-2944 Body_part denotes intron http://purl.org/sig/ont/fma/fma84121
T17 3133-3137 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 432-437 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T13 1860-1863 Disease denotes CHS http://purl.obolibrary.org/obo/MONDO_0008963

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T11 197-199 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T12 209-213 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T13 492-494 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T14 492-494 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T15 678-680 http://purl.obolibrary.org/obo/CLO_0053794 denotes 41
T16 704-709 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T17 867-868 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T18 994-995 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T19 2044-2049 http://purl.obolibrary.org/obo/UBERON_0003101 denotes males
T20 2044-2049 http://www.ebi.ac.uk/efo/EFO_0000970 denotes males
T21 2079-2086 http://purl.obolibrary.org/obo/UBERON_0003100 denotes females
T22 2142-2144 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T23 2142-2144 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T24 2424-2425 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T25 2652-2653 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T26 3133-3137 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T27 3380-3383 http://purl.obolibrary.org/obo/CLO_0051568 denotes SAS

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T3 105-107 Chemical denotes AF http://purl.obolibrary.org/obo/CHEBI_73807
T4 492-494 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T5 546-556 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T6 546-551 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T7 552-556 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T8 654-660 Chemical denotes lysine http://purl.obolibrary.org/obo/CHEBI_18019|http://purl.obolibrary.org/obo/CHEBI_25094
T10 669-677 Chemical denotes tyrosine http://purl.obolibrary.org/obo/CHEBI_18186
T11 751-758 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T12 1050-1057 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T13 1150-1157 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T14 1724-1726 Chemical denotes AF http://purl.obolibrary.org/obo/CHEBI_73807
T15 1785-1787 Chemical denotes AF http://purl.obolibrary.org/obo/CHEBI_73807
T16 1829-1831 Chemical denotes AF http://purl.obolibrary.org/obo/CHEBI_73807
T17 2142-2144 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T13 0-335 Sentence denotes To systematically investigate the candidate functional coding variants in ACE2 and the allele frequency (AF) differences between populations, we analyzed all the 1700 variants (Supplementary Table S1) in ACE2 gene region from the ChinaMAP (China Metabolic Analytics Project, under reviewing) and 1KGP (1000 Genomes Project)9 databases.
T14 336-496 Sentence denotes The AFs of 62 variants located in the coding regions of ACE2 in ChinaMAP, 1KGP, and other large-scale genome databases were summarized (Supplementary Table S2).
T15 497-608 Sentence denotes All of the 32 variants potentially affecting the amino acid sequence of ACE2 in databases were shown (Fig. 1a).
T16 609-775 Sentence denotes Previous study showed that the residues near lysine 31, and tyrosine 41, 82–84, and 353–357 in human ACE2 were important for the binding of S-protein in coronavirus5.
T17 776-861 Sentence denotes The mutations in these residues were not found in different populations in our study.
T18 862-957 Sentence denotes Only a singleton truncating variant of ACE2 (Gln300X) was identified in the ChinaMAP (Fig. 1a).
T19 958-1081 Sentence denotes These data suggested that there was a lack of natural resistant mutations for coronavirus S-protein binding in populations.
T20 1082-1196 Sentence denotes The effects of low-frequency missense variants in populations for S-protein binding could be further investigated.
T21 1197-1378 Sentence denotes The distributions of seven hotspot variants (Lys26Arg, Ile468Val, Ala627Val, Asn638Ser, Ser692Pro, Asn720Asp, and Leu731Ile/Leu731Phe) in different populations were shown (Fig. 1b).
T22 1379-1595 Sentence denotes Six low-frequency loci (rs200180615, rs140473595, rs199951323, rs147311723, rs149039346, and rs73635825) were found to be specific in 1KGP database, the AFs of which were also low in the gnomAD and TopMed10 database.
T23 1596-1734 Sentence denotes Only two of these six variants (rs200180615 and rs140473595) could be found in CHB (Han Chinese in Beijing) population with the AF < 0.01.
T24 1735-1998 Sentence denotes Interestingly, the SNP rs2285666 with the highest AF in the 62 variants exhibited much higher AF in the ChinaMAP (0.556) and CHS (Han Chinese South, 0.557) populations compared to others (AMR, Ad Mixed American, 0.336; AFR, African, 0.2114; EUR, European, 0.235).
T25 1999-2146 Sentence denotes In addition, the homozygous mutation rate in males (0.550) was much higher than females (0.310) in the Chinese population (Supplementary Table S2).
T26 2147-2325 Sentence denotes Taken together, the differences in AFs of ACE2 coding variants among different populations suggested that the diverse genetic basis might affect ACE2 functions among populations.
T27 2326-2423 Sentence denotes Fig. 1 The coding-region variants and eQTL variants for ACE2 in East Asian and other populations.
T28 2424-2513 Sentence denotes a Schematics of 32 coding variants in ACE2 identified in the ChinaMAP and 1KGP databases.
T29 2514-2595 Sentence denotes Yellow stars indicate the nonsense variants; dots indicate the missense variants.
T30 2596-2734 Sentence denotes The number of samples with hotspot variants was marked. b The distribution of hotspot missense mutations of ACE2 in different populations.
T31 2735-2890 Sentence denotes The colors indicate different populations. c The distribution and the allele frequencies of representative eQTL variants for ACE2 in different populations.
T32 2891-2986 Sentence denotes Pie charts depict the allele frequencies of an intron variant of ACE2 (rs4646127) in the world.
T33 2987-3088 Sentence denotes Orange color denotes the frequency of alteration allele, and blue color denotes the reference allele.
T34 3089-3158 Sentence denotes The allele frequencies of 15 eQTLs for ACE2 gene are shown in tables.
T35 3159-3242 Sentence denotes The color gradient from blue to red indicates the increasing of allele frequencies.
T36 3243-3333 Sentence denotes The allele frequencies of INDEL variant rs200781818 were annotated by the gnomAD database.
T37 3334-3421 Sentence denotes EAS, East Asian; EUR, European; AFR, African; SAS, South Asian; AMR, Ad Mixed American.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id tao:has_standard_notation
153 344-346 Gene denotes of Gene:6688
77 2382-2386 Gene denotes ACE2 Gene:59272
95 2607-2609 Gene denotes of Gene:6688
96 3128-3132 Gene denotes ACE2 Gene:59272
97 2956-2960 Gene denotes ACE2 Gene:59272
98 2860-2864 Gene denotes ACE2 Gene:59272
99 2704-2708 Gene denotes ACE2 Gene:59272
100 2462-2466 Gene denotes ACE2 Gene:59272
101 3266-3268 Gene denotes of Gene:6688
102 3220-3222 Gene denotes of Gene:6688
103 3112-3114 Gene denotes of Gene:6688
104 3022-3024 Gene denotes of Gene:6688
105 2953-2955 Gene denotes of Gene:6688
106 2932-2934 Gene denotes of Gene:6688
107 2824-2826 Gene denotes of Gene:6688
108 2701-2703 Gene denotes of Gene:6688
109 2671-2673 Gene denotes of Gene:6688
110 2962-2971 Mutation denotes rs4646127 rs4646127
111 3283-3294 Mutation denotes rs200781818 rs200781818
145 2189-2193 Gene denotes ACE2 Gene:59272
146 901-905 Gene denotes ACE2 Gene:59272
147 710-714 Gene denotes ACE2 Gene:59272
148 204-208 Gene denotes ACE2 Gene:59272
149 74-78 Gene denotes ACE2 Gene:59272
150 746-748 Gene denotes of Gene:6688
151 501-503 Gene denotes of Gene:6688
152 389-391 Gene denotes of Gene:6688
154 704-709 Species denotes human Tax:9606
155 762-773 Species denotes coronavirus Tax:11118
156 1036-1047 Species denotes coronavirus Tax:11118
157 2292-2296 Gene denotes ACE2 Gene:59272
158 392-396 Gene denotes ACE2 Gene:59272
159 654-660 Chemical denotes lysine MESH:D008239
160 669-677 Chemical denotes tyrosine MESH:D014443
161 1252-1261 Chemical denotes Ile468Val
162 1321-1330 Chemical denotes Leu731Phe
163 105-107 Disease denotes AF MESH:D001281
164 1675-1678 Disease denotes CHB
165 1724-1726 Disease denotes AF MESH:D001281
166 1785-1787 Disease denotes AF MESH:D001281
167 1829-1831 Disease denotes AF MESH:D001281
168 1860-1863 Disease denotes CHS MESH:D002609
169 1628-1639 Mutation denotes rs200180615 rs200180615
170 1644-1655 Mutation denotes rs140473595 rs140473595
171 1429-1440 Mutation denotes rs199951323 rs199951323
172 1442-1453 Mutation denotes rs147311723 rs147311723
173 1455-1466 Mutation denotes rs149039346 rs149039346
174 1472-1482 Mutation denotes rs73635825 rs73635825
175 1403-1414 Mutation denotes rs200180615 rs200180615
176 1416-1427 Mutation denotes rs140473595 rs140473595
177 1758-1767 Mutation denotes rs2285666 rs2285666