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PMC:7140597 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id tao:has_standard_notation
1 46-56 Species denotes SARS-CoV-2 Tax:2697049
7 226-236 Species denotes SARS-CoV-2 Tax:2697049
8 255-263 Species denotes patients Tax:9606
9 405-412 Species denotes patient Tax:9606
10 630-638 Species denotes patients Tax:9606
11 674-684 Species denotes SARS-CoV-2 Tax:2697049
21 905-950 Species denotes severe acute respiratory syndrome coronavirus Tax:694009
22 952-962 Species denotes SARS-CoV-2 Tax:2697049
23 1352-1362 Species denotes SARS-CoV-2 Tax:2697049
24 772-791 Disease denotes respiratory illness MESH:D012140
25 843-862 Disease denotes coronavirus disease MESH:D018352
26 864-872 Disease denotes COVID-19 MESH:C000657245
27 1131-1139 Disease denotes COVID-19 MESH:C000657245
28 1316-1324 Disease denotes COVID-19 MESH:C000657245
29 1396-1402 Disease denotes deaths MESH:D003643
34 1543-1553 Species denotes SARS-CoV-2 Tax:2697049
35 1593-1601 Species denotes patients Tax:9606
36 1638-1645 Species denotes patient Tax:9606
37 1851-1858 Species denotes patient Tax:9606
39 2120-2128 Species denotes Patients Tax:9606
47 2184-2192 Species denotes patients Tax:9606
48 2383-2390 Species denotes patient Tax:9606
49 2494-2501 Species denotes patient Tax:9606
50 2631-2639 Species denotes patients Tax:9606
51 2668-2678 Species denotes SARS-CoV-2 Tax:2697049
52 2248-2267 Disease denotes respiratory illness MESH:D012140
53 2269-2278 Disease denotes pneumonia MESH:D011014
64 3790-3793 Gene denotes Kit Gene:3815
65 3672-3675 Gene denotes kit Gene:3815
66 3467-3470 Gene denotes kit Gene:3815
67 3339-3342 Gene denotes kit Gene:3815
68 3009-3016 Species denotes patient Tax:9606
69 3037-3044 Species denotes patient Tax:9606
70 4102-4110 Species denotes patients Tax:9606
71 4238-4245 Species denotes hcov-19 Tax:2697049
72 3140-3154 Chemical denotes Eagle’s medium
73 3216-3224 Chemical denotes GlutaMAX MESH:C054122
78 4301-4311 Species denotes SARS-CoV-2 Tax:2697049
79 4429-4436 Species denotes patient Tax:9606
80 4528-4538 Species denotes SARS-Cov-2 Tax:2697049
81 4350-4358 Disease denotes infected MESH:D007239
83 5618-5625 Species denotes patient Tax:9606
85 5886-5896 Species denotes SARS-CoV-2 Tax:2697049
88 6202-6212 Species denotes SARS-CoV-2 Tax:2697049
89 6214-6259 Species denotes severe acute respiratory syndrome coronavirus Tax:694009
92 7034-7041 Species denotes patient Tax:9606
93 6897-6917 Disease denotes GISAID accession IDs MESH:C535742
95 7307-7314 Species denotes patient Tax:9606
98 7644-7654 Species denotes SARS-CoV-2 Tax:2697049
99 7755-7762 Species denotes patient Tax:9606
102 8339-8346 Species denotes patient Tax:9606
103 8116-8124 CellLine denotes MN908947 CVCL:U508
106 8792-8802 Species denotes SARS-CoV-2 Tax:2697049
107 9125-9133 CellLine denotes MN908947 CVCL:U508
110 8690-8700 Species denotes SARS-CoV-2 Tax:2697049
111 8744-8754 Species denotes SARS-CoV-2 Tax:2697049
116 9530-9562 Gene denotes ORF1ab: ORF encoding polyprotein Gene:43740578
117 9483-9495 Gene denotes nucleocapsid Gene:43740575
118 9589-9599 Species denotes SARS-CoV-2 Tax:2697049
119 9601-9646 Species denotes severe acute respiratory syndrome coronavirus Tax:694009
128 10181-10185 Gene denotes ORF1 Gene:55354
129 10189-10193 Gene denotes ORF1 Gene:55354
130 10197-10201 Gene denotes ORF1 Gene:55354
131 10205-10209 Gene denotes ORF1 Gene:55354
132 10213-10217 Gene denotes ORF1 Gene:55354
133 10258-10270 Gene denotes Nucleocapsid Gene:43740575
134 10107-10117 Species denotes SARS-CoV-2 Tax:2697049
135 10363-10371 CellLine denotes MN908947 CVCL:U508
138 9996-10006 Species denotes SARS-CoV-2 Tax:2697049
139 10059-10069 Species denotes SARS-CoV-2 Tax:2697049
143 10708-10740 Gene denotes ORF1ab: ORF encoding polyprotein Gene:43740578
144 10742-10752 Species denotes SARS-CoV-2 Tax:2697049
145 10754-10799 Species denotes severe acute respiratory syndrome coronavirus Tax:694009
148 10964-10974 Chemical denotes methionine MESH:D008715
149 10929-10937 CellLine denotes MN908947 CVCL:U508
153 11238-11245 Species denotes patient Tax:9606
154 11320-11327 Species denotes patient Tax:9606
155 11229-11237 Disease denotes COVID-19 MESH:C000657245
159 12005-12017 Gene denotes nucleocapsid Gene:43740575
160 11729-11735 Mutation denotes L3606F p.L3606F
161 11789-11794 Mutation denotes D614G p.D614G
163 12347-12354 Species denotes patient Tax:9606
166 12684-12696 Gene denotes nucleocapsid Gene:43740575
167 12745-12752 Species denotes patient Tax:9606
179 12895-12905 Species denotes SARS-CoV-2 Tax:2697049
180 12989-12996 Species denotes patient Tax:9606
181 13164-13171 Species denotes patient Tax:9606
182 13270-13277 Species denotes patient Tax:9606
183 13342-13349 Species denotes patient Tax:9606
184 13434-13441 Species denotes patient Tax:9606
185 13660-13675 Species denotes Other sequences Tax:28384
186 13853-13861 Species denotes patients Tax:9606
187 13934-13944 Species denotes SARS-CoV-2 Tax:2697049
188 14656-14666 Species denotes SARS-CoV-2 Tax:2697049
189 13155-13163 Disease denotes COVID-19 MESH:C000657245
194 16490-16500 Species denotes SARS-CoV-2 Tax:2697049
195 16213-16216 Disease denotes ALP MESH:D050197
196 16293-16295 Disease denotes AF MESH:D001281
197 16400-16403 Disease denotes ALP MESH:D050197

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 6-12 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T2 206-212 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T3 1520-1526 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T4 2075-2081 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T5 2158-2164 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T6 2301-2305 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T7 3116-3121 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T8 3293-3296 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T9 3330-3333 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T10 3720-3726 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T11 3795-3797 Body_part denotes V2 http://purl.org/sig/ont/fma/fma13443|http://purl.org/sig/ont/fma/fma68615
T13 3963-3969 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T14 4312-4319 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T15 4548-4555 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T16 5307-5313 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T17 5677-5683 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T18 5725-5732 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T19 5906-5912 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T20 6016-6022 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T21 6333-6339 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T22 6822-6828 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T23 6965-6971 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T24 7274-7280 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T25 7416-7422 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T26 7526-7532 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T27 8030-8041 Body_part denotes amino-acids http://purl.org/sig/ont/fma/fma82739
T28 8053-8060 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T29 8167-8173 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T30 8232-8238 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T31 8364-8370 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T32 8516-8526 Body_part denotes amino-acid http://purl.org/sig/ont/fma/fma82739
T33 8563-8571 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T34 8670-8676 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T35 8956-8960 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T36 8969-8973 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T37 8983-8987 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T38 8996-9000 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T39 9009-9013 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T40 9022-9026 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T41 9028-9032 Body_part denotes Gene http://purl.org/sig/ont/fma/fma74402
T42 9042-9046 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T43 9048-9052 Body_part denotes Gene http://purl.org/sig/ont/fma/fma74402
T44 9056-9060 Body_part denotes Gene http://purl.org/sig/ont/fma/fma74402
T45 9064-9068 Body_part denotes Gene http://purl.org/sig/ont/fma/fma74402
T46 9496-9503 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T47 9575-9587 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T48 9753-9759 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T49 9773-9777 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T50 9906-9916 Body_part denotes Amino acid http://purl.org/sig/ont/fma/fma82739
T51 9976-9982 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T52 10237-10249 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T53 10807-10817 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T54 10862-10869 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T55 10964-10974 Body_part denotes methionine http://purl.org/sig/ont/fma/fma82759
T56 11121-11127 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T57 11278-11284 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T58 11474-11484 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T59 11819-11831 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T60 11952-11956 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T61 11978-11985 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T62 12018-12025 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T63 12188-12194 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T64 12235-12245 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T65 12404-12416 Body_part denotes amino acidic http://purl.org/sig/ont/fma/fma82739
T66 12467-12473 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T67 12517-12529 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T68 12534-12546 Body_part denotes amino acidic http://purl.org/sig/ont/fma/fma82739
T69 12697-12704 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T70 12792-12803 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739
T71 12828-12835 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T72 12880-12887 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T73 13132-13138 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T74 14206-14217 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739
T75 14481-14488 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T76 16253-16258 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T77 16332-16338 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T78 16359-16366 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T79 16425-16432 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 2301-2305 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T2 6528-6533 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T3 6822-6828 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 46-54 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T2 226-234 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T3 674-682 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T4 864-872 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T5 905-938 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T6 952-960 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T7 1131-1139 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T8 1316-1324 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T9 1352-1360 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T10 1543-1551 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T11 2269-2278 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T12 2668-2676 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T13 2768-2771 Disease denotes ISS http://purl.obolibrary.org/obo/MONDO_0010367
T14 4166-4175 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T15 4301-4309 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T16 4528-4532 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T17 5886-5894 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T18 6075-6084 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T19 6202-6210 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T20 6211-6259 Disease denotes 2: severe acute respiratory syndrome coronavirus http://purl.obolibrary.org/obo/MONDO_0100096
T21 6214-6247 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T22 7644-7652 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T23 8690-8698 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T24 8744-8752 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T25 8792-8800 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T26 9589-9597 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T27 9598-9646 Disease denotes 2: severe acute respiratory syndrome coronavirus http://purl.obolibrary.org/obo/MONDO_0100096
T28 9601-9634 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T29 9996-10004 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T30 10059-10067 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T31 10107-10115 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T32 10742-10750 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T33 10751-10799 Disease denotes 2: severe acute respiratory syndrome coronavirus http://purl.obolibrary.org/obo/MONDO_0100096
T34 10754-10787 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T35 11229-11237 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T36 12895-12903 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T37 13155-13163 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T38 13934-13942 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T39 14656-14664 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T40 14750-14753 Disease denotes ISS http://purl.obolibrary.org/obo/MONDO_0010367
T41 14754-14762 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T42 15135-15145 Disease denotes Infectious http://purl.obolibrary.org/obo/MONDO_0005550
T43 15824-15834 Disease denotes Infectious http://purl.obolibrary.org/obo/MONDO_0005550
T44 15912-15916 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T45 16226-16228 Disease denotes EB http://purl.obolibrary.org/obo/MONDO_0006541
T46 16229-16231 Disease denotes AM http://purl.obolibrary.org/obo/MONDO_0020320
T47 16232-16234 Disease denotes CF http://purl.obolibrary.org/obo/MONDO_0009061
T48 16297-16300 Disease denotes RDS http://purl.obolibrary.org/obo/MONDO_0009971
T49 16490-16498 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T1 265-266 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T2 372-373 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T3 712-717 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T4 764-765 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T5 830-842 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organization
T6 1096-1101 http://purl.obolibrary.org/obo/CLO_0001759 denotes at 31
T7 1260-1263 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T8 1331-1338 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T9 1650-1651 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T10 2130-2135 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T11 2289-2290 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T12 2301-2305 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T13 2301-2305 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T14 2462-2463 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T15 2581-2582 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T16 3111-3115 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T17 3111-3115 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T18 3116-3121 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T19 3226-3227 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T20 3837-3847 http://purl.obolibrary.org/obo/OBI_0000968 denotes instrument
T21 4478-4479 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T22 4502-4503 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T23 4773-4779 http://purl.obolibrary.org/obo/UBERON_0001630 denotes MUSCLE
T24 4773-4779 http://purl.obolibrary.org/obo/UBERON_0005090 denotes MUSCLE
T25 4773-4779 http://www.ebi.ac.uk/efo/EFO_0000801 denotes MUSCLE
T26 4773-4779 http://www.ebi.ac.uk/efo/EFO_0001949 denotes MUSCLE
T27 4968-4969 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T28 5255-5256 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T29 5710-5711 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T30 7032-7033 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T31 7070-7071 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T32 7174-7175 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T33 7382-7383 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T34 7824-7825 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T35 7875-7876 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T36 8633-8634 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T37 8956-8960 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T38 8969-8973 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T39 8983-8987 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T40 8996-9000 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T41 9009-9013 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T42 9022-9026 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T43 9028-9032 http://purl.obolibrary.org/obo/OGG_0000000002 denotes Gene
T44 9042-9046 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T45 9048-9052 http://purl.obolibrary.org/obo/OGG_0000000002 denotes Gene
T46 9056-9060 http://purl.obolibrary.org/obo/OGG_0000000002 denotes Gene
T47 9064-9068 http://purl.obolibrary.org/obo/OGG_0000000002 denotes Gene
T48 9096-9100 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T49 9108-9112 http://purl.obolibrary.org/obo/CLO_0001627 denotes A A
T50 9114-9118 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T51 9120-9124 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T52 9149-9153 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T53 9161-9165 http://purl.obolibrary.org/obo/CLO_0001627 denotes A A
T54 9167-9171 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T55 9173-9177 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T56 9203-9207 http://purl.obolibrary.org/obo/CLO_0009421 denotes T T
T57 9203-9207 http://purl.obolibrary.org/obo/CLO_0009935 denotes T T
T58 9203-9207 http://purl.obolibrary.org/obo/CLO_0052184 denotes T T
T59 9203-9207 http://purl.obolibrary.org/obo/CLO_0052185 denotes T T
T60 9209-9213 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T61 9224-9228 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T62 9230-9234 http://purl.obolibrary.org/obo/CLO_0001627 denotes A A
T63 9265-9269 http://purl.obolibrary.org/obo/CLO_0009421 denotes T T
T64 9265-9269 http://purl.obolibrary.org/obo/CLO_0009935 denotes T T
T65 9265-9269 http://purl.obolibrary.org/obo/CLO_0052184 denotes T T
T66 9265-9269 http://purl.obolibrary.org/obo/CLO_0052185 denotes T T
T67 9271-9272 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T68 9283-9284 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T69 9286-9290 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T70 9292-9296 http://purl.obolibrary.org/obo/CLO_0001627 denotes A A
T71 9327-9331 http://purl.obolibrary.org/obo/CLO_0009421 denotes T T
T72 9327-9331 http://purl.obolibrary.org/obo/CLO_0009935 denotes T T
T73 9327-9331 http://purl.obolibrary.org/obo/CLO_0052184 denotes T T
T74 9327-9331 http://purl.obolibrary.org/obo/CLO_0052185 denotes T T
T75 9333-9337 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T76 9345-9346 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T77 9348-9352 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T78 9354-9358 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T79 9386-9390 http://purl.obolibrary.org/obo/CLO_0009421 denotes T T
T80 9386-9390 http://purl.obolibrary.org/obo/CLO_0009935 denotes T T
T81 9386-9390 http://purl.obolibrary.org/obo/CLO_0052184 denotes T T
T82 9386-9390 http://purl.obolibrary.org/obo/CLO_0052185 denotes T T
T83 9392-9396 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T84 9404-9405 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T85 9407-9411 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T86 9413-9417 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T87 9463-9467 http://purl.obolibrary.org/obo/CLO_0001627 denotes A A
T88 9472-9476 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T89 9703-9704 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T90 9773-9777 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T91 9788-9789 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T92 10172-10175 http://purl.obolibrary.org/obo/CLO_0001180 denotes 203
T93 10343-10347 http://purl.obolibrary.org/obo/CLO_0001547 denotes A P
T94 10390-10394 http://purl.obolibrary.org/obo/CLO_0001547 denotes A P
T95 10447-10452 http://purl.obolibrary.org/obo/CL_0000453 denotes L -c
T96 10454-10458 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T97 10501-10502 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T98 10510-10514 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T99 10557-10561 http://purl.obolibrary.org/obo/CLO_0001547 denotes A P
T100 10566-10570 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T101 10610-10611 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T102 10619-10623 http://purl.obolibrary.org/obo/CLO_0003417 denotes G G
T103 10663-10667 http://purl.obolibrary.org/obo/CLO_0001547 denotes A P
T104 10801-10802 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T105 10976-10977 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T106 11445-11447 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T107 11736-11739 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T108 11836-11839 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T109 11930-11935 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T110 11952-11956 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T111 12125-12126 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T112 12228-12229 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T113 12274-12275 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T114 12491-12492 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T115 12577-12578 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T116 12643-12644 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T117 13013-13014 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T118 13091-13096 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T119 13362-13363 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T120 13575-13580 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T121 13635-13636 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T122 14108-14113 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T123 14296-14301 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T124 15923-15928 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T125 16099-16101 http://purl.obolibrary.org/obo/CLO_0008491 denotes PS
T126 16149-16154 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T127 16206-16208 http://purl.obolibrary.org/obo/CLO_0003358 denotes FL
T128 16226-16228 http://purl.obolibrary.org/obo/CLO_0002867 denotes EB
T129 16248-16252 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T130 16248-16252 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T131 16253-16258 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T132 16282-16287 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T133 16405-16407 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T134 16454-16456 http://purl.obolibrary.org/obo/CLO_0003358 denotes FL

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 4393-4395 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T2 4455-4457 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T3 5073-5077 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617
T4 5364-5366 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T5 5520-5522 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T6 5644-5646 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T7 6125-6129 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617
T8 6722-6724 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T9 6999-7001 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T10 7253-7257 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617
T11 8030-8035 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T12 8036-8041 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T13 8053-8060 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T14 8516-8521 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T15 8522-8526 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T16 8563-8571 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T17 8812-8814 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T18 9496-9503 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T19 9575-9587 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T20 9906-9916 Chemical denotes Amino acid http://purl.obolibrary.org/obo/CHEBI_33704
T21 9912-9916 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T22 10237-10249 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T23 10807-10817 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T24 10807-10812 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T25 10813-10817 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T26 10862-10869 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T27 10964-10974 Chemical denotes methionine http://purl.obolibrary.org/obo/CHEBI_16811|http://purl.obolibrary.org/obo/CHEBI_64558
T29 11445-11447 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T31 11474-11484 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T32 11474-11479 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T33 11480-11484 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T34 11819-11831 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T35 11978-11985 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T36 12018-12025 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T37 12235-12245 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T38 12235-12240 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T39 12241-12245 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T40 12404-12409 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T41 12517-12529 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T42 12534-12539 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T43 12697-12704 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T44 12792-12803 Chemical denotes amino acids http://purl.obolibrary.org/obo/CHEBI_33709
T45 12792-12797 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T46 12798-12803 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T47 14206-14217 Chemical denotes amino acids http://purl.obolibrary.org/obo/CHEBI_33709
T48 14206-14211 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T49 14212-14217 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T50 14769-14774 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T51 16099-16101 Chemical denotes PS http://purl.obolibrary.org/obo/CHEBI_18303|http://purl.obolibrary.org/obo/CHEBI_53276|http://purl.obolibrary.org/obo/CHEBI_73648
T54 16206-16208 Chemical denotes FL http://purl.obolibrary.org/obo/CHEBI_91150
T55 16226-16228 Chemical denotes EB http://purl.obolibrary.org/obo/CHEBI_53197
T56 16289-16291 Chemical denotes GF http://purl.obolibrary.org/obo/CHEBI_73912
T57 16293-16295 Chemical denotes AF http://purl.obolibrary.org/obo/CHEBI_73807
T58 16368-16370 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T59 16405-16407 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T61 16447-16449 Chemical denotes GF http://purl.obolibrary.org/obo/CHEBI_73912
T62 16454-16456 Chemical denotes FL http://purl.obolibrary.org/obo/CHEBI_91150
T63 16605-16607 Chemical denotes GR http://purl.obolibrary.org/obo/CHEBI_73860

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T1 772-791 Phenotype denotes respiratory illness http://purl.obolibrary.org/obo/HP_0002086
T2 2248-2267 Phenotype denotes respiratory illness http://purl.obolibrary.org/obo/HP_0002086
T3 2269-2278 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 3453-3466 http://purl.obolibrary.org/obo/GO_0003968 denotes Transcriptase
T2 3453-3466 http://purl.obolibrary.org/obo/GO_0003899 denotes Transcriptase
T3 9950-9962 http://purl.obolibrary.org/obo/GO_0006412 denotes translations
T4 11930-11956 http://purl.obolibrary.org/obo/GO_0046718 denotes virus entry into host cell
T5 11936-11956 http://purl.obolibrary.org/obo/GO_0044409 denotes entry into host cell

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1 0-189 Sentence denotes Whole genome and phylogenetic analysis of two SARS-CoV-2 strains isolated in Italy in January and February 2020: additional clues on multiple introductions and further circulation in Europe
T2 191-199 Sentence denotes Abstract
T3 200-368 Sentence denotes Whole genome sequences of SARS-CoV-2 obtained from two patients, a Chinese tourist visiting Rome and an Italian, were compared with sequences from Europe and elsewhere.
T4 369-531 Sentence denotes In a phylogenetic tree, the Italian patient’s sequence clustered with sequences from Germany while the tourist’s sequence clustered with other European sequences.
T5 532-650 Sentence denotes Some additional European sequences in the tree segregated outside the two clusters containing the patients’ sequences.
T6 651-747 Sentence denotes This suggests multiple SARS-CoV-2 introductions in Europe or virus evolution during circulation.
T7 749-1047 Sentence denotes An outbreak of a viral respiratory illness (officially named by the World Health Organization coronavirus disease, COVID-19) caused by the newly discovered severe acute respiratory syndrome coronavirus (SARS-CoV-2), started around mid-December 2019, in the city of Wuhan, Hubei province, China [1].
T8 1048-1206 Sentence denotes The outbreak subsequently spread further and as at 31 March 2020, 750,890 cases of COVID-19 have been confirmed worldwide including 668,345 outside China [2].
T9 1207-1407 Sentence denotes Since 20 February 2020, sustained local transmission has been documented in Italy [3], where to date, 98,716 COVID-19 cases testing positive for SARS-CoV-2 have been diagnosed, with 10,943 deaths [4].
T10 1408-1627 Sentence denotes To gain further understanding on the molecular epidemiology of the outbreak in Italy, we characterised the full-genome sequence of two SARS-CoV-2 strains respectively isolated from two patients diagnosed in the country.
T11 1628-1839 Sentence denotes The first patient was a Chinese tourist from Wuhan diagnosed at the end of January, who had visited Rome and not been in areas of Italy later found to be the initially affected areas of the epidemic in Lombardy.
T12 1840-2003 Sentence denotes The second patient was an Italian person, with no apparent direct epidemiological link with China and who was diagnosed in the second half of February in Lombardy.
T13 2004-2118 Sentence denotes The sequences presented are analysed in the context of other available genome sequences from Europe and elsewhere.
T14 2120-2175 Sentence denotes Patients, virus cultivation and whole genome sequencing
T15 2176-2370 Sentence denotes The two patients in this study had both been hospitalised with an acute respiratory illness (pneumonia), showing a bilateral lung involvement with ground-glass opacity, requiring intensive care.
T16 2371-2481 Sentence denotes The Chinese patient had had onset of symptoms on 29 January 2020 and had been diagnosed in a hospital in Rome.
T17 2482-2601 Sentence denotes The Italian patient whose onset of symptoms had occurred on 10 February 2020 had been diagnosed in a hospital in Milan.
T18 2602-2781 Sentence denotes Biological samples from both patients had been confirmed as being SARS-CoV-2 positive by the National Reference Laboratory (NRL) of the Istituto Superiore di Sanità (ISS) in Rome.
T19 2782-2840 Sentence denotes The samples used for this study were nasopharyngeal swabs.
T20 2841-3017 Sentence denotes These had been respectively sampled on the same day of hospitalisation, when symptoms occurred, for the Chinese tourist and 10 days after symptom onset for the Italian patient.
T21 3018-3225 Sentence denotes An aliquot of each patient’s nasopharyngeal sample was used to generate in vitro cultures in Vero cells grown in modified Eagle’s medium (MEM; Gibco, Thermofisher, United Kingdom) supplemented with GlutaMAX.
T22 3226-3369 Sentence denotes A total of 140 µL of each culture’s supernatant was used for viral RNA extraction using the QIAMP VIRAL RNA mini kit (Qiagen, Hilden, Germany).
T23 3370-3656 Sentence denotes The obtained genomic RNAs were retro-transcribed using the SuperScript III Reverse Transcriptase kit (Invitrogen, Carisbad, United States (US)) and double-stranded DNAs were subsequently obtained by Klenow enzyme (Roche, Basel, Switzerland) according to the manufacturer’s instructions.
T24 3657-3874 Sentence denotes The Nextera XT kit was used for library preparations and whole genome sequencing was performed using the Illumina Miseq Reagent Nano Kit, V2 (2 x 150 cycles) on the Illumina MiSeq instrument (Illumina, San Diego, US).
T25 3875-4072 Sentence denotes The reads were trimmed for quality and length and assembled by mapping to the reference genome from Wuhan, China (GenBank accession number: NC_045512.2) using Geneious Prime (www.geneious.com) [5].
T26 4073-4253 Sentence denotes Viral sequences from the two patients were deposited in the Global Initiative on Sharing All Influenza Data (GISAID; https://www.gisaid.org/epiflu-applications/next-hcov-19-app/ ).
T27 4255-4276 Sentence denotes Phylogenetic analysis
T28 4277-4683 Sentence denotes To analyse the obtained SARS-CoV-2 genomes respectively derived from the infected Chinese tourist (GISAID accession ID: EPI_ISL_412974) and the Italian patient (GISAID accession ID: EPI_ISL_412973) in a phylogenetic context, a dataset of 40 available SARS-Cov-2 complete genomes from different countries was retrieved from GISAID (https://www.gisaid.org/, last access 2 March 2020; Supplementary material).
T29 4684-4819 Sentence denotes Sequence alignment was performed using MUltiple Sequence Comparison by Log- Expectation (MUSCLE) software (http://www.clustal.org) [6].
T30 4820-5116 Sentence denotes Estimation of the best fitting substitution model (Hasegawa, Kishino, and Yano, HKY model) and inference of the phylogenetic tree were conducted by a maximum likelihood approach using Molecular Evolutionary Genetics Analysis across Computing Platforms (MEGA X; https://www.megasoftware.net/) [7].
T31 5117-5193 Sentence denotes Support for the tree topology was estimated with 1,000 bootstrap replicates.
T32 5194-5296 Sentence denotes The maximum likelihood phylogenetic tree in the Figure shows a main clade containing several clusters.
T33 5297-5540 Sentence denotes The viral genome sequence of the Chinese tourist (GISAID accession ID: EPI_ISL_412974) was identical to that retrieved from one sample of another Chinese tourist, hospitalised at the same hospital in Rome (GISAID accession ID: EPI_ISL_410546).
T34 5541-5664 Sentence denotes The latter was closely related to that of another sample taken from the same patient (GISAID accession ID: EPI_ISL_410545).
T35 5665-5848 Sentence denotes These three genome sequences were located in a cluster with genomes mainly from Europe (England, France, Italy, Sweden), but also one from Australia (Figure, highlighted in dark red).
T36 5849-6033 Sentence denotes Figure Phylogenetic analysis of two SARS-CoV-2 complete genome sequences retrieved in this study, with available complete sequences from different countriesa (n = 40 genome sequences)
T37 6034-6041 Sentence denotes GISAID:
T38 6042-6095 Sentence denotes Global Initiative on Sharing All Influenza Data; HKY:
T39 6096-6132 Sentence denotes Hasegawa, Kishino, and Yano; MEGA X:
T40 6133-6260 Sentence denotes Molecular Evolutionary Genetics Analysis across Computing Platforms; SARS-CoV-2: severe acute respiratory syndrome coronavirus.
T41 6261-6312 Sentence denotes Main clusters are highlighted in different colours.
T42 6313-6398 Sentence denotes The Wuhan reference genome is in larger font (GenBank accession number: NC_045512.2).
T43 6399-6523 Sentence denotes The filled circles represent the main supported clusters (bootstrap support values are indicated at the level of the nodes).
T44 6524-6610 Sentence denotes The scale bar at the bottom of the tree represents 0.000050 nt substitutions per site.
T45 6611-6757 Sentence denotes The cluster containing the viral sequence of the Chinese tourist who had visited Rome, Italy (GISAID accession ID: EPI_ISL_412974) is in dark red.
T46 6758-6954 Sentence denotes This cluster includes viral sequences derived from two samples (sputum and nasopharyngeal swabs) of another Chinese tourist visiting Rome (GISAID accession IDs: EPI_ISL_410545 and EPI_ISL_410546).
T47 6955-7173 Sentence denotes The viral genome sequence (GISAID accession ID: EPI_ISL_412973) derived from a patient from Lombardy, Italy, is in a cluster highlighted in green, which is different from that containing the Chinese tourist’s sequence.
T48 7174-7269 Sentence denotes a The tree wasbuilt by using the best fitting substitution model (HKY) through MEGA X software.
T49 7270-7604 Sentence denotes The genome sequence from the Italian patient in Lombardy (EPI_ISL_412973) appeared in contrast to be located in a different cluster including two genome sequences from Germany (EPI_ISL_406862 Bavaria/Munich and EPI_ISL_412912 Baden-Wuerttemberg-1) and one genome sequence from Mexico (EPI_ISL_ 412972), (Figure, highlighted in green).
T50 7605-7801 Sentence denotes In the tree, some sequences from other SARS-CoV-2 collected in Europe segregated in separate clusters from the two clusters containing the respective patient sequences characterised in this study.
T51 7802-7923 Sentence denotes There was for example a cluster formed by two sequences from England and a cluster formed by three sequences from France.
T52 7924-8359 Sentence denotes Using an alignment, the single nt polymorphisms (SNPs) composition and the potentially resulting variable amino-acids in derived protein sequences compared with the Wuhan reference sequences (MN908947 and NC_045512), were investigated for the genome sequences retrieved in this study, as well as three other genome sequences (EPI_ISL_412972, EPI_ISL_ 412912, EPI_ISL_406862) that clustered with the sequence of the patient in Lombardy.
T53 8360-8497 Sentence denotes The genome-wide SNPs are reported in Table 1 (positions referred respect to the reference sequence; GenBank accession number: NC_045512).
T54 8498-8593 Sentence denotes The corresponding amino-acid positions and variations inside the proteins are shown in Table 2.
T55 8594-8791 Sentence denotes Table 1 Single nt polymorphisms (SNPs)a deduced by comparison of two whole genome sequences of SARS-CoV-2 characterised in this studyb with selected SARS-CoV-2 sequences (n = 7 compared sequences)
T56 8792-8940 Sentence denotes SARS-CoV-2 sequence ID (country from which the sequence originated) 241 3037 10265 11083 13206 14408 15806 23403 26144 28881 28882 28883
T57 8941-9070 Sentence denotes 5' UTR ORF1ab gene ORF1ab gene ORF 1ab gene ORF1ab gene ORF1ab gene ORF1ab gene Gene S ORF3a gene Gene N Gene N Gene N
T58 9071-9124 Sentence denotes NC_045512 (China) C C G G C C A A G G G G
T59 9125-9177 Sentence denotes MN908947 (China) C C G G C C A A G G G G
T60 9178-9237 Sentence denotes EPI_ISL:412972 (Mexico) T T G G G T - G G A A C
T61 9238-9246 Sentence denotes EPI_ISL:
T62 9247-9299 Sentence denotes 412912 (Germany) T T A G C T A G G A A C
T63 9300-9308 Sentence denotes EPI_ISL:
T64 9309-9361 Sentence denotes 406862 (Germany) T T G G C C A G G G G G
T65 9362-9420 Sentence denotes EPI_ISL_412973 (Italy) T T G G C T A G G G G G
T66 9421-9479 Sentence denotes EPI_ISL_412974 (Italy) C C G T C C A A T G G G
T67 9480-9702 Sentence denotes N: nucleocapsid protein; ORF: open reading frame; ORF1ab: ORF encoding polyprotein; S: surface glycoprotein; SARS-CoV-2: severe acute respiratory syndrome coronavirus; SNP: single nt polymorphism; UTR: untranslated region.
T68 9703-9787 Sentence denotes a SNPs are shown according to nt positions in the genome sequence and gene location.
T69 9788-9896 Sentence denotes b The two sequences characterised in this study are the ones from Italy (EPI_ISL_412973 and EPI_ISL_412974).
T70 9897-10106 Sentence denotes Table 2 Amino acid variationsa deduced by comparing translations of two whole genome sequences of SARS-CoV-2 characterised in this studyb with those of selected SARS-CoV-2 sequences (n = 7 compared sequences)
T71 10107-10180 Sentence denotes SARS-CoV-2 strains 924 3334 3606 4314 4704 5170 614 251 203 204
T72 10181-10314 Sentence denotes ORF1ab ORF1ab ORF1ab ORF1ab ORF1ab ORF1ab Surface glycoprotein ORF3a Nucleocapsid phosphoprotein Nucleocapsid phosphoprotein
T73 10315-10362 Sentence denotes NC_045512 (China) F G L A P Q D G R G
T74 10363-10409 Sentence denotes MN908947 (China) F G L A P Q D G R G
T75 10410-10464 Sentence denotes EPI_ISL:412972 (Mexico) F G L G L -c G G K R
T76 10465-10473 Sentence denotes EPI_ISL:
T77 10474-10520 Sentence denotes 412912 (Germany) F S L A L Q G G K R
T78 10521-10529 Sentence denotes EPI_ISL:
T79 10530-10576 Sentence denotes 406862 (Germany) F G L A P Q G G R G
T80 10577-10629 Sentence denotes EPI_ISL_412973 (Italy) F G L A L Q G G R G
T81 10630-10682 Sentence denotes EPI_ISL_412974 (Italy) F G F A P Q D V R G
T82 10683-10800 Sentence denotes ORF: open reading frame; ORF1ab: ORF encoding polyprotein; SARS-CoV-2: severe acute respiratory syndrome coronavirus.
T83 10801-10975 Sentence denotes a The amino acid positions refer to those in each respective protein sequence of the Wuhan reference (GenBank accession number: MN908947), starting from the first methionine.
T84 10976-11084 Sentence denotes b The two sequences characterised in this study are the ones from Italy (EPI_ISL_412973 and EPI_ISL_412974).
T85 11085-11116 Sentence denotes c -: possible sequencing error.
T86 11117-11364 Sentence denotes The genome sequence from the Chinese tourist hospitalised in Rome differed in two nt positions from that of the COVID-19 patient in Wuhan (NC_045512), while the genome sequence isolated from the Italian patient showed four nt variations (Table 1).
T87 11365-11492 Sentence denotes For the sequence of the Chinese tourist, the first SNP inside ORF1ab (bps 3037, AA 924) did not result in an amino acid change.
T88 11493-12026 Sentence denotes In the Table 2 that depicts five sequences characterised outside of China, overall eight missense mutations can be observed compared to the two reference Wuhan sequences: four locate to the ORF1ab polyprotein, whereby only the mutation L3606F has previously been reported by Phan, 2020 [8]; one, D614G, locates to the surface glycoprotein and has been prior observed [8], but is not in the receptor binding domain (RDB), responsible for virus entry into host cell; one is in the ORF3a protein and two are in the nucleocapsid protein.
T89 12027-12199 Sentence denotes The sequence of the Chinese tourist hospitalised in Rome on 29 January (EPI_ISL_412974) presented a mutation 3606F in ORF1ab with respect to the reference Wuhan genome (L).
T90 12200-12307 Sentence denotes In ORF3a, this sequence had a V at amino acid position 251, as opposed to a G in the references from Wuhan.
T91 12308-12478 Sentence denotes Meanwhile, the sequence of the Italian patient from Lombardy (EPI_ISL 412973) presented an L at amino acidic position 4704 with respect to the reference Wuhan genome (P).
T92 12479-12664 Sentence denotes It also had a mutation in the surface glycoprotein, at amino acidic position 614, where it showed a G compared to the reference sequences from Wuhan that presented a D at that position.
T93 12665-12836 Sentence denotes With regard to the nucleocapsid protein, both of the sequences from the Italian patient and Chinese tourist presented the same amino acids of the references Wuhan genomes.
T94 12838-12848 Sentence denotes Discussion
T95 12849-13109 Sentence denotes In this study, the full length genomes of two SARS-CoV-2 strains (EPI_ISL_412973 and EPI_ISL_412974) isolated in Italy, one from an Italian patient, the other from a Chinese tourist visiting Rome, are completely sequenced and analysed, after virus cultivation.
T96 13110-13287 Sentence denotes Compared to the viral genome sequence of the COVID-19 patient in Wuhan, the sequence from the Chinese tourist had two nt differences, while that of the Italian patient had four.
T97 13288-13407 Sentence denotes Phylogenetic analysis consistently placed the Italian patient’s strain in a distinct cluster from the tourist’s strain.
T98 13408-13659 Sentence denotes The strain of the Italian patient grouped with other viral strains identified in Germany and Mexico, while the strain from the Chinese tourist, related with the Wuhan virus strain, clustered with different European strains and a strain from Australia.
T99 13660-13876 Sentence denotes Other sequences from strains collected in Europe, which were included in the phylogenetic analysis, ended up in separate clusters from the ones respectively containing the sequences of the two patients reported here.
T100 13877-14080 Sentence denotes The results are consistent with several introductions of SARS-CoV-2 in Europe and/or further circulation of the single strain originating in Wuhan with concurrent evolution and accumulation of mutations.
T101 14081-14318 Sentence denotes The mutations found in the virus identified in Lombardy, compared with the reference Wuhan strain, and the identification of amino acids changes, should be further investigated to understand whether they may affect virus characteristics.
T102 14319-14560 Sentence denotes Some limitations need be mentioned: first, the lack of epidemiological information available with most sequences deposited in the database; second, the number of genomes available at the time of the analysis and consequently their selection.
T103 14561-14677 Sentence denotes Nevertheless, these data may be useful to understand the dynamics of the local transmission of SARS-CoV-2 in Europe.
T104 14679-14695 Sentence denotes Acknowledgements
T105 14696-14775 Sentence denotes We gratefully acknowledge the Collaborator Members of ISS COVID-19 study group:
T106 14776-15185 Sentence denotes Angela Di Martino, Marzia Facchini, Fabiola Mancini, Simona Puzelli, Giuseppina Di Mario, Laura Calzoletti, Stefano Fontana, Giulietta Venturi, Claudia Fortuna, Giulia Marsili, Antonello Amendola, Fabrizio Barbanti, Maria Scaturro, Daniela Fortini, Marco Di Luca, Luciano Toma, Francesco Severini, Patrizio Pezzotti, Antonino Bella, Flavia Riccardo, dept. of Infectious Diseases, Istituto Superiore di Sanità.
T107 15186-15365 Sentence denotes We gratefully acknowledge the Authors, the Originating and Submitting Laboratories for their sequence and metadata shared through GISAID and NCBI, on which this research is based.
T108 15366-15434 Sentence denotes All submitters of data may be contacted directly via www.gisaid.org.
T109 15435-15519 Sentence denotes The Acknowledgments Table for GISAID and NCBI is reported as Supplementary material.
T110 15520-15629 Sentence denotes The authors also thank Davide Mileto, Alessandro Mancon, Clinical Microbiology, Virology and Bioemergency, L.
T111 15630-15929 Sentence denotes Sacco University Hospital, Milan, Italy and Concetta Castilletti, Eleonora Lalle, Francesca Colavita, Fabrizio Carletti, Daniele Lapa, Licia Bordi Laboratory of Virology, National Institute for Infectious Diseases “Lazzaro Spallanzani” IRCCS, Rome, Italy, for performing diagnostic SARS-Cov-2 tests.
T112 15930-15941 Sentence denotes Disclaimer:
T113 15942-16036 Sentence denotes The new sequences have been deposited in GISAID with accession IDs: EPI_ISL_412973 and 412974.
T114 16038-16059 Sentence denotes Conflict of interest:
T115 16060-16074 Sentence denotes None declared.
T116 16075-16640 Sentence denotes Authors’ contributions: PS: conceived the study, coordinated the in vitro virus cultivation and wrote the manuscript together with FL and ALP; SFiore, EB,AM,CF prepared the Vero cells and cultivated the two virus; GF, AF, RDS and SFillo performed the whole genome sequence of the new genomes (ID: EPI_ISL_412973 and 412974); ALP, AA, AC analysed the genomes together with GF and FL; MRCapobianchi and MRG diagnosed SARS-CoV-2 onto the two samples; AC set up the molecular methods; MRCastrucci coordinated laboratory confirmation; GR read and revised the manuscript.
T117 16641-16686 Sentence denotes The authors read and approved the manuscript.
T118 16688-16706 Sentence denotes Supplementary Data
T119 16707-16729 Sentence denotes Supplementary Material
T120 16730-16766 Sentence denotes Click here for additional data file.

MyTest

Id Subject Object Predicate Lexical cue
32265007-22543367-29331401 4069-4070 22543367 denotes 5
32265007-15318951-29331402 4816-4817 15318951 denotes 6
32265007-29722887-29331403 5113-5114 29722887 denotes 7
32265007-32092483-29331404 11780-11781 32092483 denotes 8
32265007-32092483-29331405 11861-11862 32092483 denotes 8

2_test

Id Subject Object Predicate Lexical cue
32265007-22543367-29331401 4069-4070 22543367 denotes 5
32265007-15318951-29331402 4816-4817 15318951 denotes 6
32265007-29722887-29331403 5113-5114 29722887 denotes 7
32265007-32092483-29331404 11780-11781 32092483 denotes 8
32265007-32092483-29331405 11861-11862 32092483 denotes 8

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T1 6-12 SO:0001026 denotes genome
T2 46-56 SP_7 denotes SARS-CoV-2
T3 206-212 SO:0001026 denotes genome
T4 226-236 SP_7 denotes SARS-CoV-2
T5 674-684 SP_7 denotes SARS-CoV-2
T6 712-717 NCBITaxon:10239 denotes virus
T7 766-771 NCBITaxon:10239 denotes viral
T8 772-783 UBERON:0001004 denotes respiratory
T9 843-854 NCBITaxon:11118 denotes coronavirus
T10 864-872 SP_7 denotes COVID-19
T11 905-917 SP_10 denotes severe acute
T12 918-929 SP_10;UBERON:0001004 denotes respiratory
T13 930-950 SP_10 denotes syndrome coronavirus
T14 952-962 SP_7 denotes SARS-CoV-2
T15 1131-1139 SP_7 denotes COVID-19
T16 1316-1324 SP_7 denotes COVID-19
T17 1352-1362 SP_7 denotes SARS-CoV-2
T18 1396-1402 GO:0016265 denotes deaths
T19 1520-1526 SO:0001026 denotes genome
T20 1543-1553 SP_7 denotes SARS-CoV-2
T21 1874-1880 NCBITaxon:9606 denotes person
T22 2075-2081 SO:0001026 denotes genome
T23 2130-2135 NCBITaxon:10239 denotes virus
T24 2158-2164 SO:0001026 denotes genome
T25 2248-2259 UBERON:0001004 denotes respiratory
T26 2301-2305 UBERON:0002048 denotes lung
T27 2668-2678 SP_7 denotes SARS-CoV-2
T28 2819-2833 UBERON:0001728 denotes nasopharyngeal
T29 3047-3061 UBERON:0001728 denotes nasopharyngeal
T30 3111-3115 CL_6 denotes Vero
T31 3122-3127 GO:0040007 denotes grown
T32 3287-3292 NCBITaxon:10239 denotes viral
T33 3383-3390 SO:0001026 denotes genomic
T34 3401-3418 GO:0001171 denotes retro-transcribed
T35 3518-3533 SO:0000985 denotes double-stranded
T36 3720-3726 SO:0001026 denotes genome
T37 3777-3784 CHEBI:33893;CHEBI:33893 denotes Reagent
T38 3879-3884 SO:0000150 denotes reads
T39 3963-3969 SO:0001505 denotes genome
T40 4301-4311 SP_7 denotes SARS-CoV-2
T41 4312-4319 SO:0001026 denotes genomes
T42 4528-4538 SP_7 denotes SARS-Cov-2
T43 4548-4555 SO:0001026 denotes genomes
T44 4900-4903 PR:Q8NBH2 denotes HKY
T45 5301-5306 NCBITaxon:10239 denotes viral
T46 5307-5313 SO:0001026 denotes genome
T47 5677-5683 SO:0001026 denotes genome
T48 5725-5732 SO:0001026 denotes genomes
T49 5886-5896 SP_7 denotes SARS-CoV-2
T50 5906-5912 SO:0001026 denotes genome
T51 6016-6022 SO:0001026 denotes genome
T52 6091-6094 PR:Q8NBH2 denotes HKY
T53 6202-6212 SP_7 denotes SARS-CoV-2
T54 6214-6226 SP_10 denotes severe acute
T55 6227-6238 SP_10;UBERON:0001004 denotes respiratory
T56 6239-6259 SP_10 denotes syndrome coronavirus
T57 6333-6339 SO:0001505 denotes genome
T58 6638-6643 NCBITaxon:10239 denotes viral
T59 6780-6785 NCBITaxon:10239 denotes viral
T60 6822-6828 UBERON:0007311 denotes sputum
T61 6833-6847 UBERON:0001728 denotes nasopharyngeal
T62 6959-6964 NCBITaxon:10239 denotes viral
T63 6965-6971 SO:0001026 denotes genome
T64 7240-7243 PR:Q8NBH2 denotes HKY
T65 7274-7280 SO:0001026 denotes genome
T66 7416-7422 SO:0001026 denotes genome
T67 7526-7532 SO:0001026 denotes genome
T68 7644-7654 SP_7 denotes SARS-CoV-2
T69 7948-7954 SO:0000984 denotes single
T70 7973-7977 SO:0000694 denotes SNPs
T71 8167-8173 SO:0001026 denotes genome
T72 8232-8238 SO:0001026 denotes genome
T73 8364-8370 SO:0001026 denotes genome
T74 8376-8380 SO:0000694 denotes SNPs
T75 8603-8609 SO:0000984 denotes Single
T76 8610-8612 SO:0000694 denotes nt
T77 8628-8632 SO:0000694 denotes SNPs
T78 8670-8676 SO:0001026 denotes genome
T79 8690-8700 SP_7 denotes SARS-CoV-2
T80 8744-8754 SP_7 denotes SARS-CoV-2
T81 9483-9503 PG_4 denotes nucleocapsid protein
T82 9505-9508 SO:0000236 denotes ORF
T83 9510-9528 SO:0000236 denotes open reading frame
T84 9538-9541 SO:0000236 denotes ORF
T85 9567-9574 GO:0009986 denotes surface
T86 9575-9587 CHEBI:17089;BV_11;CHEBI:17089 denotes glycoprotein
T87 9589-9599 SP_7 denotes SARS-CoV-2
T88 9601-9613 SP_10 denotes severe acute
T89 9614-9625 SP_10;GO:0045333 denotes respiratory
T90 9626-9646 SP_10 denotes syndrome coronavirus
T91 9648-9651 SO:0000694 denotes SNP
T92 9653-9659 SO:0000984 denotes single
T93 9677-9680 SO:0000203 denotes UTR
T94 9682-9694 GO:0006412;SO:0000203 denotes untranslated
T95 9695-9701 SO:0000203 denotes region
T96 9705-9709 SO:0000694 denotes SNPs
T97 9753-9759 SO:0001026 denotes genome
T98 9773-9777 SO:0000704 denotes gene
T99 9976-9982 SO:0001026 denotes genome
T100 9996-10006 SP_7 denotes SARS-CoV-2
T101 10059-10069 SP_7 denotes SARS-CoV-2
T102 10683-10686 SO:0000236 denotes ORF
T103 10688-10706 SO:0000236 denotes open reading frame
T104 10716-10719 SO:0000236 denotes ORF
T105 10742-10752 SP_7 denotes SARS-CoV-2
T106 10754-10766 SP_10 denotes severe acute
T107 10767-10778 SP_10;UBERON:0001004 denotes respiratory
T108 10779-10799 SP_10 denotes syndrome coronavirus
T109 11121-11127 SO:0001026 denotes genome
T110 11229-11237 SP_7 denotes COVID-19
T111 11278-11284 SO:0001026 denotes genome
T112 11416-11419 SO:0000694 denotes SNP
T113 11435-11438 SO:0000028 denotes bps
T114 11811-11818 GO:0009986 denotes surface
T115 11819-11831 CHEBI:17089;BV_11;CHEBI:17089 denotes glycoprotein
T116 11900-11906 SO:0000417 denotes domain
T117 11930-11935 NCBITaxon:10239;GO:0035376 denotes virus
T118 11936-11941 GO:0035376 denotes entry
T119 11972-11977 SO:0000236;PR:P10394 denotes ORF3a
T120 12005-12025 PG_4 denotes nucleocapsid protein
T121 12188-12194 SO:0001026 denotes genome
T122 12467-12473 SO:0001026 denotes genome
T123 12509-12516 GO:0009986 denotes surface
T124 12517-12529 CHEBI:17089;BV_11;CHEBI:17089 denotes glycoprotein
T125 12684-12704 PG_4 denotes nucleocapsid protein
T126 12828-12835 SO:0001026 denotes genomes
T127 12880-12887 SO:0001026 denotes genomes
T128 12895-12905 SP_7 denotes SARS-CoV-2
T129 13091-13096 NCBITaxon:10239 denotes virus
T130 13126-13131 NCBITaxon:10239 denotes viral
T131 13132-13138 SO:0001026 denotes genome
T132 13155-13163 SP_7 denotes COVID-19
T133 13461-13466 NCBITaxon:10239 denotes viral
T134 13575-13580 NCBITaxon:10239 denotes virus
T135 13934-13944 SP_7 denotes SARS-CoV-2
T136 14108-14113 NCBITaxon:10239 denotes virus
T137 14296-14301 NCBITaxon:10239 denotes virus
T138 14481-14488 SO:0001026 denotes genomes
T139 14656-14666 SP_7 denotes SARS-CoV-2
T30372 6-12 SO:0001026 denotes genome
T98695 46-56 SP_7 denotes SARS-CoV-2
T32902 206-212 SO:0001026 denotes genome
T30740 226-236 SP_7 denotes SARS-CoV-2
T69400 674-684 SP_7 denotes SARS-CoV-2
T23922 712-717 NCBITaxon:10239 denotes virus
T84205 766-771 NCBITaxon:10239 denotes viral
T86998 772-783 UBERON:0001004 denotes respiratory
T5582 843-854 NCBITaxon:11118 denotes coronavirus
T74370 864-872 SP_7 denotes COVID-19
T93582 905-917 SP_10 denotes severe acute
T77130 918-929 SP_10;UBERON:0001004 denotes respiratory
T71807 930-950 SP_10 denotes syndrome coronavirus
T7876 952-962 SP_7 denotes SARS-CoV-2
T55544 1131-1139 SP_7 denotes COVID-19
T45250 1316-1324 SP_7 denotes COVID-19
T33179 1352-1362 SP_7 denotes SARS-CoV-2
T91369 1396-1402 GO:0016265 denotes deaths
T62477 1520-1526 SO:0001026 denotes genome
T77180 1543-1553 SP_7 denotes SARS-CoV-2
T27533 1874-1880 NCBITaxon:9606 denotes person
T21454 2075-2081 SO:0001026 denotes genome
T73478 2130-2135 NCBITaxon:10239 denotes virus
T84888 2158-2164 SO:0001026 denotes genome
T84324 2248-2259 UBERON:0001004 denotes respiratory
T2343 2301-2305 UBERON:0002048 denotes lung
T79337 2668-2678 SP_7 denotes SARS-CoV-2
T36099 2819-2833 UBERON:0001728 denotes nasopharyngeal
T22443 3047-3061 UBERON:0001728 denotes nasopharyngeal
T34235 3111-3115 CL_6 denotes Vero
T49998 3122-3127 GO:0040007 denotes grown
T82261 3287-3292 NCBITaxon:10239 denotes viral
T35219 3383-3390 SO:0001026 denotes genomic
T89238 3401-3418 GO:0001171 denotes retro-transcribed
T35314 3518-3533 SO:0000985 denotes double-stranded
T7658 3720-3726 SO:0001026 denotes genome
T70392 3777-3784 CHEBI:33893;CHEBI:33893 denotes Reagent
T76648 3879-3884 SO:0000150 denotes reads
T41676 3963-3969 SO:0001505 denotes genome
T26369 4301-4311 SP_7 denotes SARS-CoV-2
T82884 4312-4319 SO:0001026 denotes genomes
T69016 4528-4538 SP_7 denotes SARS-Cov-2
T23094 4548-4555 SO:0001026 denotes genomes
T75860 4900-4903 PR:Q8NBH2 denotes HKY
T57752 5301-5306 NCBITaxon:10239 denotes viral
T89608 5307-5313 SO:0001026 denotes genome
T87733 5677-5683 SO:0001026 denotes genome
T50942 5725-5732 SO:0001026 denotes genomes
T54719 5886-5896 SP_7 denotes SARS-CoV-2
T27861 5906-5912 SO:0001026 denotes genome
T61622 6016-6022 SO:0001026 denotes genome
T85188 6091-6094 PR:Q8NBH2 denotes HKY
T78315 6202-6212 SP_7 denotes SARS-CoV-2
T29875 6214-6226 SP_10 denotes severe acute
T40524 6227-6238 SP_10;UBERON:0001004 denotes respiratory
T71952 6239-6259 SP_10 denotes syndrome coronavirus
T95867 6333-6339 SO:0001505 denotes genome
T69699 6638-6643 NCBITaxon:10239 denotes viral
T54856 6780-6785 NCBITaxon:10239 denotes viral
T23824 6822-6828 UBERON:0007311 denotes sputum
T54055 6833-6847 UBERON:0001728 denotes nasopharyngeal
T34311 6959-6964 NCBITaxon:10239 denotes viral
T12643 6965-6971 SO:0001026 denotes genome
T60438 7240-7243 PR:Q8NBH2 denotes HKY
T25776 7274-7280 SO:0001026 denotes genome
T74661 7416-7422 SO:0001026 denotes genome
T78059 7526-7532 SO:0001026 denotes genome
T21403 7644-7654 SP_7 denotes SARS-CoV-2
T39609 7948-7954 SO:0000984 denotes single
T30135 7973-7977 SO:0000694 denotes SNPs
T39489 8167-8173 SO:0001026 denotes genome
T88269 8232-8238 SO:0001026 denotes genome
T37517 8364-8370 SO:0001026 denotes genome
T62939 8376-8380 SO:0000694 denotes SNPs
T64644 8603-8609 SO:0000984 denotes Single
T74210 8610-8612 SO:0000694 denotes nt
T40113 8628-8632 SO:0000694 denotes SNPs
T89285 8670-8676 SO:0001026 denotes genome
T68496 8690-8700 SP_7 denotes SARS-CoV-2
T73200 8744-8754 SP_7 denotes SARS-CoV-2
T91217 9483-9503 PG_4 denotes nucleocapsid protein
T59024 9505-9508 SO:0000236 denotes ORF
T73720 9510-9528 SO:0000236 denotes open reading frame
T97869 9538-9541 SO:0000236 denotes ORF
T1631 9567-9574 GO:0009986 denotes surface
T5223 9575-9587 CHEBI:17089;BV_11;CHEBI:17089 denotes glycoprotein
T36038 9589-9599 SP_7 denotes SARS-CoV-2
T69447 9601-9613 SP_10 denotes severe acute
T347 9614-9625 SP_10;GO:0045333 denotes respiratory
T36070 9626-9646 SP_10 denotes syndrome coronavirus
T97368 9648-9651 SO:0000694 denotes SNP
T83634 9653-9659 SO:0000984 denotes single
T75808 9677-9680 SO:0000203 denotes UTR
T28454 9682-9694 GO:0006412;SO:0000203 denotes untranslated
T3332 9695-9701 SO:0000203 denotes region
T87391 9705-9709 SO:0000694 denotes SNPs
T7000 9753-9759 SO:0001026 denotes genome
T50922 9773-9777 SO:0000704 denotes gene
T14581 9976-9982 SO:0001026 denotes genome
T231 9996-10006 SP_7 denotes SARS-CoV-2
T98823 10059-10069 SP_7 denotes SARS-CoV-2
T84277 10683-10686 SO:0000236 denotes ORF
T50006 10688-10706 SO:0000236 denotes open reading frame
T79281 10716-10719 SO:0000236 denotes ORF
T37798 10742-10752 SP_7 denotes SARS-CoV-2
T88846 10754-10766 SP_10 denotes severe acute
T87127 10767-10778 SP_10;UBERON:0001004 denotes respiratory
T28697 10779-10799 SP_10 denotes syndrome coronavirus
T94584 11121-11127 SO:0001026 denotes genome
T9484 11229-11237 SP_7 denotes COVID-19
T88395 11278-11284 SO:0001026 denotes genome
T85537 11416-11419 SO:0000694 denotes SNP
T26397 11435-11438 SO:0000028 denotes bps
T69341 11811-11818 GO:0009986 denotes surface
T31143 11819-11831 CHEBI:17089;BV_11;CHEBI:17089 denotes glycoprotein
T55026 11900-11906 SO:0000417 denotes domain
T38776 11930-11935 NCBITaxon:10239;GO:0035376 denotes virus
T33067 11936-11941 GO:0035376 denotes entry
T56789 11972-11977 SO:0000236;PR:P10394 denotes ORF3a
T2137 12005-12025 PG_4 denotes nucleocapsid protein
T89271 12188-12194 SO:0001026 denotes genome
T91154 12467-12473 SO:0001026 denotes genome
T18845 12509-12516 GO:0009986 denotes surface
T47519 12517-12529 CHEBI:17089;BV_11;CHEBI:17089 denotes glycoprotein
T48584 12684-12704 PG_4 denotes nucleocapsid protein
T96880 12828-12835 SO:0001026 denotes genomes
T51835 12880-12887 SO:0001026 denotes genomes
T12887 12895-12905 SP_7 denotes SARS-CoV-2
T51126 13091-13096 NCBITaxon:10239 denotes virus
T98613 13126-13131 NCBITaxon:10239 denotes viral
T73410 13132-13138 SO:0001026 denotes genome
T85175 13155-13163 SP_7 denotes COVID-19
T83238 13461-13466 NCBITaxon:10239 denotes viral
T77672 13575-13580 NCBITaxon:10239 denotes virus
T43672 13934-13944 SP_7 denotes SARS-CoV-2
T47178 14108-14113 NCBITaxon:10239 denotes virus
T21942 14296-14301 NCBITaxon:10239 denotes virus
T78355 14481-14488 SO:0001026 denotes genomes
T9593 14656-14666 SP_7 denotes SARS-CoV-2