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PMC:7033720 / 13140-16434 JSONTXT

Annnotations TAB JSON ListView MergeView

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
234 2012-2018 Species denotes b A 15 Tax:447219
235 2221-2227 Species denotes b A 20 Tax:447224
236 1083-1088 CellLine denotes WHU01 CVCL:9726
237 1145-1150 CellLine denotes WHU01 CVCL:9726
238 1211-1216 CellLine denotes WHU01 CVCL:9726
239 1275-1280 CellLine denotes WHU01 CVCL:9726
240 1339-1344 CellLine denotes WHU01 CVCL:9726
241 1402-1407 CellLine denotes WHU01 CVCL:9726
242 1466-1471 CellLine denotes WHU01 CVCL:9726
243 1530-1535 CellLine denotes WHU01 CVCL:9726
244 1593-1598 CellLine denotes WHU01 CVCL:9726
245 1658-1663 CellLine denotes WHU01 CVCL:9726
246 1721-1726 CellLine denotes WHU01 CVCL:9726
247 1784-1789 CellLine denotes WHU01 CVCL:9726
248 1866-1871 CellLine denotes WHU01 CVCL:9726
249 1934-1939 CellLine denotes WHU01 CVCL:9726
250 2005-2010 CellLine denotes WHU01 CVCL:9726
251 2074-2079 CellLine denotes WHU01 CVCL:9726
252 2144-2149 CellLine denotes WHU01 CVCL:9726
253 2199-2219 CellLine denotes 19.10 1.90E-47 WHU01 CVCL:6820
254 2283-2288 CellLine denotes WHU01 CVCL:9726
255 2350-2355 CellLine denotes WHU01 CVCL:9726
256 2418-2423 CellLine denotes WHU01 CVCL:9726
257 2481-2486 CellLine denotes WHU01 CVCL:9726
259 938-943 CellLine denotes WHU01 CVCL:9726
269 367-375 Species denotes patients Tax:9606
270 402-405 Species denotes CoV Tax:11118
271 463-472 Species denotes 2019-nCoV Tax:2697049
272 833-844 Species denotes coronaviral Tax:11118
273 878-886 Species denotes patients Tax:9606
274 381-389 Disease denotes infected MESH:D007239
275 279-287 CellLine denotes MN988668 CVCL:U508
276 292-300 CellLine denotes MN988669 CVCL:U508
277 480-485 CellLine denotes WHU01 CVCL:9726

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T65 25-31 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T66 107-117 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T67 204-210 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T68 566-572 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T69 663-669 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T70 864-869 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T71 903-913 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T72 954-961 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T111 600-609 http://www.ebi.ac.uk/efo/EFO_0000876 denotes extremely
T112 826-832 http://purl.obolibrary.org/obo/CLO_0001658 denotes active
T113 864-869 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T114 1098-1103 http://purl.obolibrary.org/obo/CLO_0001012 denotes 221 1
T115 1110-1112 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T116 1154-1155 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T117 1172-1173 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T118 1220-1221 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T119 1238-1239 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T120 1272-1274 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T121 1298-1299 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T122 1348-1350 http://purl.obolibrary.org/obo/CLO_0009421 denotes TT
T123 1348-1350 http://purl.obolibrary.org/obo/CLO_0052184 denotes TT
T124 1348-1350 http://purl.obolibrary.org/obo/CLO_0052185 denotes TT
T125 1363-1365 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T126 1368-1370 http://purl.obolibrary.org/obo/CLO_0009421 denotes TT
T127 1368-1370 http://purl.obolibrary.org/obo/CLO_0052184 denotes TT
T128 1368-1370 http://purl.obolibrary.org/obo/CLO_0052185 denotes TT
T129 1553-1554 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T130 1602-1603 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T131 1620-1621 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T132 1681-1682 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T133 1943-1945 http://purl.obolibrary.org/obo/CLO_0009421 denotes TT
T134 1943-1945 http://purl.obolibrary.org/obo/CLO_0052184 denotes TT
T135 1943-1945 http://purl.obolibrary.org/obo/CLO_0052185 denotes TT
T136 1962-1964 http://purl.obolibrary.org/obo/CLO_0001627 denotes AA
T137 1967-1969 http://purl.obolibrary.org/obo/CLO_0009421 denotes TT
T138 1967-1969 http://purl.obolibrary.org/obo/CLO_0052184 denotes TT
T139 1967-1969 http://purl.obolibrary.org/obo/CLO_0052185 denotes TT
T140 2014-2015 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T141 2036-2037 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T142 2101-2102 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T143 2223-2224 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T144 2245-2246 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T145 2291-2292 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T146 2313-2314 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T147 2358-2359 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T148 2380-2384 http://purl.obolibrary.org/obo/CLO_0001599 denotes A 54
T149 2424-2427 http://purl.obolibrary.org/obo/CLO_0008954 denotes S C
T150 2444-2445 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T151 2497-2498 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T152 2519-2520 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T153 2629-2630 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T154 2647-2648 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T155 2695-2696 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T156 2713-2714 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T157 2747-2749 http://purl.obolibrary.org/obo/CLO_0053794 denotes 41
T158 2774-2779 http://purl.obolibrary.org/obo/CLO_0002087 denotes C 129
T159 2813-2814 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T160 2835-2836 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T161 2901-2902 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T162 3041-3042 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T163 3047-3050 http://purl.obolibrary.org/obo/CLO_0001311 denotes 356
T164 3161-3162 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T165 3183-3184 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T166 3237-3238 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T167 3259-3260 http://purl.obolibrary.org/obo/CLO_0001020 denotes A

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T33 107-117 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T34 903-913 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T35 1348-1350 Chemical denotes TT http://purl.obolibrary.org/obo/CHEBI_73665
T36 1363-1365 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T38 1368-1370 Chemical denotes TT http://purl.obolibrary.org/obo/CHEBI_73665
T39 1943-1945 Chemical denotes TT http://purl.obolibrary.org/obo/CHEBI_73665
T40 1962-1964 Chemical denotes AA http://purl.obolibrary.org/obo/CHEBI_15843|http://purl.obolibrary.org/obo/CHEBI_72816
T42 1967-1969 Chemical denotes TT http://purl.obolibrary.org/obo/CHEBI_73665

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T121 0-85 Sentence denotes On 8th January 2020, the genome comparisons and evolutionary analyses were performed.
T122 86-316 Sentence denotes Although some single nucleotide polymorphism (SNP) profiles were identified in the mNGS data (Table 2), the consensus genome sequences obtained from the patient 1 and 2 were identical (GenBank MN988668 and MN988669, respectively).
T123 317-424 Sentence denotes These results indicated that these two individual patients were infected by the same CoV at separate times.
T124 425-541 Sentence denotes We named the two clinical isolates as 2019-nCoV strain WHU01 and WHU02, respectively, according to WHO announcement.
T125 542-887 Sentence denotes Based on the results of genome mapping, our data revealed extremely high viral abundance within the samples: the average genome coverage was 523.6X and 133.7X and the estimated abundance level were 1.5% and 0.62% of total reads sequenced for patient 1 and 2, respectively, suggesting active coronaviral replication in the lungs of both patients.
T126 888-896 Sentence denotes Table 2.
T127 897-962 Sentence denotes Minor nucleotide variant identified from WHU01 and WHU02 genomes.
T128 963-1082 Sentence denotes Strain Region Variant Start Poisiton End Position Length Change Coverage Polymorphism Type VariantFrequency (%) P-value
T129 1083-1144 Sentence denotes WHU01 1a T 221 221 1 C → T 27 SNP (transition) 14.80 6.70E-07
T130 1145-1210 Sentence denotes WHU01 1a A 1103 1103 1 T → A 119 SNP (transversion) 5.00 5.40E-14
T131 1211-1274 Sentence denotes WHU01 1a A 1820 1820 1 G → A 97 SNP (transition) 11.30 2.00E-27
T132 1275-1338 Sentence denotes WHU01 1a G 3916 3916 1 A → G 113 SNP (transition) 5.30 3.90E-14
T133 1339-1401 Sentence denotes WHU01 1a TT 3919 3920 2 AA → TT 110 Substitution 5.50 1.30E-13
T134 1402-1465 Sentence denotes WHU01 1a T 3923 3923 1 C → T 108 SNP (transition) 5.60 3.00E-14
T135 1466-1529 Sentence denotes WHU01 1a T 5701 5701 1 C → T 247 SNP (transition) 5.30 5.70E-29
T136 1530-1592 Sentence denotes WHU01 1a G 8892 8892 1 A → G 69 SNP (transition) 5.80 5.40E-10
T137 1593-1657 Sentence denotes WHU01 1a A 8895 8895 1 T → A 65 SNP (transversion) 6.20 4.20E-10
T138 1658-1720 Sentence denotes WHU01 1a G 8975 8975 1 A → G 59 SNP (transition) 5.10 6.50E-08
T139 1721-1783 Sentence denotes WHU01 1a C 9114 9114 1 T → C 43 SNP (transition) 7.00 7.70E-07
T140 1784-1865 Sentence denotes WHU01 1a   11,081 11,081 1 (T)8 → (T)7 78 Deletion (tandem repeat) 12.80 1.20E-20
T141 1866-1933 Sentence denotes WHU01 1a C 13,074 13,074 1 T → C 110 SNP (transition) 5.50 3.30E-14
T142 1934-2004 Sentence denotes WHU01 1a TT 13,282 13,283 2 AA → TT 78 → 79 Substitution 5.10 9.40E-10
T143 2005-2073 Sentence denotes WHU01 1b A 15,079 15,079 1 C → A 57 SNP (transversion) 8.80 1.30E-13
T144 2074-2143 Sentence denotes WHU01 1b T 18,252 18,252 1 A → T 192 SNP (transversion) 6.30 5.50E-23
T145 2144-2213 Sentence denotes WHU01 1b T 19,163 19,163 1 C → → T 89 SNP (transition) 19.10 1.90E-47
T146 2214-2282 Sentence denotes WHU01 1b A 20,234 20,234 1 C → A 67 SNP (transversion) 6.00 1.20E-09
T147 2283-2349 Sentence denotes WHU01 S A 22,315 22,315 1 G → A 182 SNP (transition) 6.60 4.70E-28
T148 2350-2417 Sentence denotes WHU01 S A 22,447 22,447 1 C → A 54 SNP (transversion) 5.60 2.00E-07
T149 2418-2480 Sentence denotes WHU01 S C 24,322 24,322 1 A → C 325 SNP (transversion) 38.50 0
T150 2481-2555 Sentence denotes WHU01 Other ORF A 26,313 26,313 1 G → A 29 SNP (transition) 10.30 1.50E-08
T151 2556-2619 Sentence denotes WHU02 1a T 1100 1100 1 C → T 390 SNP (transition) 6.70 1.50E-56
T152 2620-2685 Sentence denotes WHU02 1a A 1103 1103 1 T → A 391 SNP (transversion) 5.90 3.10E-51
T153 2686-2749 Sentence denotes WHU02 1a A 1820 1820 1 G → A 382 SNP (transition) 5.20 1.00E-41
T154 2750-2803 Sentence denotes WHU02 1a C 6823 6822 0 +C 129 Insertion 5.40 2.50E-16
T155 2804-2873 Sentence denotes WHU02 1a A 10,778 10,778 1 T → A 323 SNP (transversion) 5.30 2.40E-32
T156 2874-2943 Sentence denotes WHU02 1a T 11,366 11,366 1 A → T 250 SNP (transversion) 6.00 4.40E-31
T157 2944-3013 Sentence denotes WHU02 1a T 11,562 11,562 1 C → T 397 SNP (transition) 13.60 1.30E-138
T158 3014-3083 Sentence denotes WHU02 1b T 13,692 13,692 1 A → T 356 SNP (transversion) 7.00 1.60E-57
T159 3084-3151 Sentence denotes WHU02 1b C 14,306 14,306 1 T → C 279 SNP (transition) 7.90 9.20E-50
T160 3152-3220 Sentence denotes WHU02 1b A 14,315 14,315 1 G → A 244 SNP (transition) 10.70 6.90E-57
T161 3221-3294 Sentence denotes WHU02 Other ORF A 26,504 26,504 1 G → A 63 SNP (transition) 6.30 1.50E-10