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PMC:7258756 / 2161-39433 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
49 4-17 Species denotes Coronaviridae Tax:11118
50 168-173 Species denotes human Tax:9606
51 269-321 Species denotes severe acute respiratory syndrome (SARS) coronavirus Tax:694009
52 323-326 Species denotes CoV Tax:11118
53 368-374 Species denotes people Tax:9606
54 458-463 Species denotes human Tax:9606
55 490-526 Species denotes Middle East respiratory syndrome CoV Tax:1335626
56 528-536 Species denotes MERS-CoV Tax:1335626
57 645-651 Species denotes humans Tax:9606
58 660-673 Species denotes Coronaviridae Tax:11118
59 697-705 Species denotes SARS-CoV Tax:694009
60 721-729 Species denotes SARS-CoV Tax:694009
61 737-745 Species denotes MERS-CoV Tax:1335626
62 185-195 Disease denotes infections MESH:D007239
63 230-252 Disease denotes respiratory infections MESH:D012141
78 2059-2064 Gene denotes spike Gene:43740568
79 1106-1115 Species denotes novel CoV Tax:2697049
80 1123-1132 Species denotes 2019-nCoV Tax:2697049
81 1342-1357 Species denotes Betacoronavirus Tax:694002
82 1373-1386 Species denotes Coronaviridae Tax:11118
83 1479-1482 Species denotes CoV Tax:11118
84 1553-1559 Species denotes humans Tax:9606
85 1603-1611 Species denotes SARS-CoV Tax:694009
86 1629-1638 Species denotes 2019-nCoV Tax:2697049
87 1655-1665 Species denotes SARS-CoV-2 Tax:2697049
88 1729-1739 Species denotes SARS-CoV-2 Tax:2697049
89 1932-1942 Species denotes SARS-CoV-2 Tax:2697049
90 800-809 Disease denotes pneumonia MESH:D011014
91 950-959 Disease denotes pneumonia MESH:D011014
99 2188-2219 Gene denotes angiotensin-converting enzyme 2 Gene:59272
100 2221-2225 Gene denotes ACE2 Gene:59272
101 2394-2398 Gene denotes ACE2 Gene:59272
102 2332-2337 Gene denotes spike Gene:43740568
103 2115-2120 Gene denotes spike Gene:43740568
104 2271-2280 Species denotes SARS-CoVs Tax:694009
105 2321-2331 Species denotes SARS-CoV-2 Tax:2697049
112 2406-2411 Species denotes human Tax:9606
113 2415-2420 Species denotes human Tax:9606
114 2441-2451 Species denotes SARS-CoV-2 Tax:2697049
115 2573-2583 Species denotes SARS-CoV-2 Tax:2697049
116 2661-2671 Species denotes SARS-CoV-2 Tax:2697049
117 2607-2613 Disease denotes deaths MESH:D003643
122 3510-3520 Species denotes SARS-CoV-2 Tax:2697049
123 3658-3668 Species denotes SARS-CoV-2 Tax:2697049
124 3936-3946 Species denotes SARS-CoV-2 Tax:2697049
125 4027-4037 Species denotes SARS-CoV-2 Tax:2697049
127 4317-4327 Species denotes SARS-CoV-2 Tax:2697049
131 4342-4352 Species denotes SARS-CoV-2 Tax:2697049
132 4934-4944 Species denotes SARS-CoV-2 Tax:2697049
133 4494-4514 Disease denotes SARS-CoV-2 infection MESH:C000657245
137 5287-5291 Gene denotes RdRp Gene:43740578
138 5297-5301 Gene denotes RdRp Gene:43740578
139 5196-5206 Species denotes SARS-CoV-2 Tax:2697049
145 6501-6504 Gene denotes CLC Gene:1178
146 6464-6467 Gene denotes CLC Gene:1178
147 5590-5600 Species denotes SARS-CoV-2 Tax:2697049
148 5763-5773 Species denotes SARS-CoV-2 Tax:2697049
149 6594-6604 Species denotes SARS-CoV-2 Tax:2697049
155 7473-7477 Gene denotes hu-1 Gene:6195
156 6638-6648 Species denotes SARS-CoV-2 Tax:2697049
157 7354-7364 Species denotes SARS-CoV-2 Tax:2697049
158 7441-7451 Species denotes SARS-CoV-2 Tax:2697049
159 7121-7123 Chemical denotes nt MESH:D009711
164 7611-7616 Gene denotes spike Gene:43740568
165 7516-7521 Gene denotes spike Gene:43740568
166 7600-7610 Species denotes SARS-CoV-2 Tax:2697049
167 8061-8071 Species denotes SARS-CoV-2 Tax:2697049
174 10642-10645 Gene denotes TAP Gene:8615
175 10069-10074 Gene denotes spike Gene:43740568
176 8580-8585 Gene denotes spike Gene:43740568
177 8569-8579 Species denotes SARS-CoV-2 Tax:2697049
178 10562-10567 Species denotes human Tax:9606
179 10503-10508 Species denotes human Tax:9606
182 11064-11080 Gene denotes interferon-gamma Gene:3458
183 11082-11087 Gene denotes IFN-γ Gene:3458
192 11394-11398 Gene denotes RdRp Gene:43740578
193 11404-11408 Gene denotes RdRp Gene:43740578
194 11417-11418 Gene denotes N Gene:43740575
195 11386-11387 Gene denotes E Gene:43740570
196 11445-11446 Gene denotes E Gene:43740570
197 11207-11217 Species denotes SARS-CoV-2 Tax:2697049
198 11336-11346 Species denotes SARS-CoV-2 Tax:2697049
199 11681-11691 Species denotes SARS-CoV-2 Tax:2697049
201 12026-12036 Species denotes SARS-CoV-2 Tax:2697049
208 11780-11784 Gene denotes RdRp Gene:43740578
209 11790-11794 Gene denotes RdRp Gene:43740578
210 11811-11812 Gene denotes N Gene:43740575
211 11800-11801 Gene denotes E Gene:43740570
212 11879-11926 Species denotes severe acute respiratory syndrome coronavirus 2 Tax:2697049
213 11928-11938 Species denotes SARS-CoV-2 Tax:2697049
219 12576-12581 Disease denotes cough MESH:D003371
220 12622-12633 Disease denotes sore throat MESH:D010608
221 12643-12648 Disease denotes fever MESH:D005334
222 12878-12883 Disease denotes fever MESH:D005334
223 12888-12897 Disease denotes diarrhoea MESH:D003967
228 13792-13796 Gene denotes Hu-1 Gene:6195
229 13351-13361 Species denotes SARS-CoV-2 Tax:2697049
230 13807-13817 Species denotes SARS-CoV-2 Tax:2697049
231 13769-13778 Disease denotes pneumonia MESH:D011014
239 14249-14252 Gene denotes Hu1 Gene:6195
240 14025-14035 Species denotes SARS-CoV-2 Tax:2697049
241 14326-14336 Species denotes SARS-CoV-2 Tax:2697049
242 14385-14400 Species denotes Betacoronavirus Tax:694002
243 14597-14607 Species denotes SARS-CoV-2 Tax:2697049
244 14685-14695 Species denotes SARS-CoV-2 Tax:2697049
245 14727-14737 Species denotes SARS-CoV-2 Tax:2697049
247 14838-14885 Species denotes severe acute respiratory syndrome coronavirus 2 Tax:2697049
258 15625-15630 Gene denotes spike Gene:43740568
259 15386-15391 Gene denotes spike Gene:43740568
260 15118-15123 Gene denotes spike Gene:43740568
261 15026-15031 Gene denotes spike Gene:43740568
262 15062-15066 Gene denotes Hu-1 Gene:6195
263 14951-14961 Species denotes SARS-CoV-2 Tax:2697049
264 15429-15439 Species denotes SARS-CoV-2 Tax:2697049
265 15479-15489 Species denotes SARS-CoV-2 Tax:2697049
266 15525-15535 Species denotes SARS-CoV-2 Tax:2697049
267 15345-15353 Chemical denotes tyrosine MESH:D014443
271 16368-16373 Gene denotes IFN-γ Gene:3458
272 16585-16590 Gene denotes IFN-γ Gene:3458
273 15806-15816 Species denotes SARS-CoV-2 Tax:2697049
275 16956-16974 Gene denotes Interferon (IFN)-γ Gene:3458
277 16835-16840 Gene denotes spike Gene:43740568
279 17470-17475 Gene denotes IFN-γ Gene:3458
288 17982-17987 Gene denotes spike Gene:43740568
289 17918-17923 Gene denotes spike Gene:43740568
290 17856-17861 Gene denotes spike Gene:43740568
291 17625-17630 Gene denotes spike Gene:43740568
292 17653-17663 Species denotes SARS-CoV-2 Tax:2697049
293 17845-17855 Species denotes SARS-CoV-2 Tax:2697049
294 17907-17917 Species denotes SARS-CoV-2 Tax:2697049
295 18754-18762 Species denotes SARS-CoV Tax:694009
309 20508-20511 Gene denotes K77 Gene:374454
310 21922-21925 Gene denotes K77 Gene:374454
311 23420-23423 Gene denotes K77 Gene:374454
312 19512-19516 CellLine denotes S706 CVCL:5G71
313 19578-19583 CellLine denotes C1080 CVCL:0317
314 19620-19625 CellLine denotes H1086 CVCL:A471
315 20798-20802 CellLine denotes S706 CVCL:5G71
316 20871-20876 CellLine denotes C1080 CVCL:0317
317 20913-20918 CellLine denotes H1086 CVCL:A471
318 22240-22244 CellLine denotes A261 CVCL:2490
319 22334-22338 CellLine denotes S706 CVCL:5G71
320 22400-22405 CellLine denotes C1080 CVCL:0317
321 22442-22447 CellLine denotes H1086 CVCL:A471
324 19302-19307 Gene denotes spike Gene:43740568
325 19254-19301 Species denotes severe acute respiratory syndrome coronavirus 2 Tax:2697049
329 23842-23847 Gene denotes spike Gene:43740568
330 23794-23841 Species denotes severe acute respiratory syndrome coronavirus 2 Tax:2697049
331 23890-23937 Species denotes severe acute respiratory syndrome-coronavirus-2 Tax:2697049
335 24384-24389 Disease denotes CHAIN MESH:D007161
336 24968-24973 Disease denotes CHAIN MESH:D007161
337 25529-25534 Disease denotes CHAIN MESH:D007161
340 24285-24290 Gene denotes spike Gene:43740568
341 24237-24284 Species denotes severe acute respiratory syndrome coronavirus 2 Tax:2697049
343 26142-26147 Gene denotes spike Gene:43740568
345 27410-27415 Gene denotes IFN-γ Gene:3458
407 27589-27607 Gene denotes Interferon (IFN)-γ Gene:3458
408 27729-27734 Gene denotes HLA-A Gene:3105
409 27752-27757 Gene denotes HLA-B Gene:3106
410 27861-27866 Gene denotes HLA-B Gene:3106
411 27873-27878 Gene denotes HLA-B Gene:3106
412 27885-27890 Gene denotes HLA-B Gene:3106
413 27906-27911 Gene denotes HLA-B Gene:3106
414 27918-27923 Gene denotes HLA-B Gene:3106
415 27930-27935 Gene denotes HLA-B Gene:3106
416 27942-27947 Gene denotes HLA-B Gene:3106
417 28061-28066 Gene denotes HLA-B Gene:3106
418 28073-28078 Gene denotes HLA-B Gene:3106
419 28085-28090 Gene denotes HLA-B Gene:3106
420 28097-28102 Gene denotes HLA-B Gene:3106
421 28109-28114 Gene denotes HLA-B Gene:3106
422 28121-28126 Gene denotes HLA-B Gene:3106
423 28131-28136 Gene denotes HLA-B Gene:3106
424 28229-28234 Gene denotes HLA-B Gene:3106
425 28241-28246 Gene denotes HLA-B Gene:3106
426 28253-28258 Gene denotes HLA-B Gene:3106
427 28265-28270 Gene denotes HLA-B Gene:3106
428 28406-28411 Gene denotes HLA-B Gene:3106
429 28418-28423 Gene denotes HLA-B Gene:3106
430 28430-28435 Gene denotes HLA-B Gene:3106
431 28442-28447 Gene denotes HLA-B Gene:3106
432 28454-28459 Gene denotes HLA-B Gene:3106
433 28466-28471 Gene denotes HLA-B Gene:3106
434 28478-28483 Gene denotes HLA-B Gene:3106
435 28656-28661 Gene denotes HLA-B Gene:3106
436 28668-28673 Gene denotes HLA-B Gene:3106
437 28750-28755 Gene denotes HLA-A Gene:3105
438 28770-28775 Gene denotes HLA-A Gene:3105
439 28802-28807 Gene denotes HLA-B Gene:3106
440 28929-28934 Gene denotes HLA-B Gene:3106
441 28941-28946 Gene denotes HLA-B Gene:3106
442 28953-28958 Gene denotes HLA-B Gene:3106
443 28965-28970 Gene denotes HLA-B Gene:3106
444 28977-28982 Gene denotes HLA-B Gene:3106
445 28989-28994 Gene denotes HLA-B Gene:3106
446 29001-29006 Gene denotes HLA-B Gene:3106
447 29081-29086 Gene denotes HLA-B Gene:3106
448 29093-29098 Gene denotes HLA-B Gene:3106
449 29105-29110 Gene denotes HLA-B Gene:3106
450 29117-29122 Gene denotes HLA-B Gene:3106
451 29129-29134 Gene denotes HLA-B Gene:3106
452 29141-29146 Gene denotes HLA-B Gene:3106
453 29153-29158 Gene denotes HLA-B Gene:3106
454 29165-29170 Gene denotes HLA-B Gene:3106
455 29177-29182 Gene denotes HLA-B Gene:3106
456 29187-29192 Gene denotes HLA-B Gene:3106
457 29208-29213 Gene denotes HLA-B Gene:3106
458 29069-29074 Gene denotes HLA-B Gene:3106
459 28887-28892 Gene denotes HLA-A Gene:3105
460 28636-28641 Gene denotes HLA-A Gene:3105
461 28624-28629 Gene denotes HLA-A Gene:3105
462 28376-28381 Gene denotes HLA-A Gene:3105
463 28364-28369 Gene denotes HLA-A Gene:3105
464 27839-27844 Gene denotes HLA-A Gene:3105
465 27709-27714 Gene denotes HLA-A Gene:3105
466 28875-28880 Gene denotes HLA-A Gene:3105
467 27827-27832 Gene denotes HLA-A Gene:3105
469 27449-27454 Gene denotes Spike Gene:43740568
471 29587-29597 Species denotes SARS-CoV-2 Tax:2697049
475 30399-30400 Gene denotes N Gene:43740575
476 30343-30351 Species denotes patients Tax:9606
477 30681-30689 Species denotes patients Tax:9606
480 30771-30781 Species denotes SARS-CoV-2 Tax:2697049
481 31369-31379 Species denotes SARS-CoV-2 Tax:2697049
497 31447-31451 Gene denotes nsp1 Gene:10045
498 32135-32139 Gene denotes ACE2 Gene:59272
499 32326-32330 Gene denotes ACE2 Gene:59272
500 32189-32194 Gene denotes spike Gene:43740568
501 31988-31993 Gene denotes spike Gene:43740568
502 31741-31746 Gene denotes spike Gene:43740568
503 31530-31533 Gene denotes Hu1 Gene:6195
504 31578-31583 Species denotes human Tax:9606
505 31584-31601 Species denotes Betacoronaviruses Tax:694002
506 31613-31622 Species denotes HCoV-HKU1 Tax:290028
507 31866-31883 Species denotes Betacoronaviruses Tax:694002
508 31911-31921 Species denotes SARS-CoV-2 Tax:2697049
509 31946-31956 Species denotes SARS-CoV-2 Tax:2697049
510 32216-32226 Species denotes SARS-CoV-2 Tax:2697049
511 31688-31704 Chemical denotes O-linked glycans
519 32436-32439 Gene denotes Hu1 Gene:6195
520 32376-32381 Gene denotes spike Gene:43740568
521 32403-32411 Species denotes SARS CoV Tax:694009
522 32418-32428 Species denotes SARS-CoV-2 Tax:2697049
523 32520-32530 Species denotes SARS-CoV-2 Tax:2697049
524 32590-32598 Species denotes SARS CoV Tax:694009
525 32908-32917 Disease denotes infection MESH:D007239
534 33459-33464 Gene denotes IFN-γ Gene:3458
535 33324-33329 Gene denotes spike Gene:43740568
536 32987-32992 Gene denotes spike Gene:43740568
537 32953-32961 Species denotes SARS-CoV Tax:694009
538 33627-33635 Species denotes SARS-CoV Tax:694009
539 33943-33951 Species denotes SARS-CoV Tax:694009
540 34236-34246 Species denotes SARS-CoV-2 Tax:2697049
541 34251-34259 Species denotes SARS-CoV Tax:694009
547 34418-34423 Gene denotes IFN-γ Gene:3458
548 34572-34577 Gene denotes IFN-γ Gene:3458
549 34755-34760 Gene denotes IFN-γ Gene:3458
550 34335-34340 Gene denotes spike Gene:43740568
551 34352-34360 Species denotes SARS-CoV Tax:694009
554 35515-35525 Species denotes SARS-CoV-2 Tax:2697049
555 35609-35617 Species denotes patients Tax:9606

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T14 84-87 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T15 88-94 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T16 208-218 Body_part denotes intestinal http://purl.org/sig/ont/fma/fma7199
T17 1195-1198 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T18 1212-1218 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T19 1830-1836 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T20 2121-2128 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T21 2164-2168 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T22 2338-2350 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T23 3741-3747 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T24 4375-4380 Body_part denotes Blood http://purl.org/sig/ont/fma/fma9670
T25 4385-4391 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738
T26 4990-4993 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T27 5044-5047 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T28 5143-5146 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T29 5309-5313 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T30 5320-5324 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T31 5334-5338 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T32 5562-5568 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T33 5678-5681 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T34 5822-5825 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T35 5936-5939 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T36 5977-5980 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T37 6021-6024 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T38 6618-6624 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T39 7109-7119 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T40 7121-7123 Body_part denotes nt http://purl.org/sig/ont/fma/fma82740
T41 7221-7231 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T42 7247-7257 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T43 7259-7261 Body_part denotes aa http://purl.org/sig/ont/fma/fma82739
T44 7522-7529 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T45 7621-7633 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T46 7744-7751 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T47 7834-7838 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T48 8033-8037 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T49 8586-8593 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T50 8846-8853 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T51 9494-9505 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739
T52 9987-9994 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T53 10075-10083 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T54 10155-10187 Body_part denotes major histocompatibility complex http://purl.org/sig/ont/fma/fma84079
T55 10189-10192 Body_part denotes MHC http://purl.org/sig/ont/fma/fma84079
T56 10215-10238 Body_part denotes cytotoxic T lymphocytes http://purl.org/sig/ont/fma/fma70573
T57 10372-10386 Body_part denotes neural network http://purl.org/sig/ont/fma/fma74616
T58 10452-10456 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T59 10509-10518 Body_part denotes leucocyte http://purl.org/sig/ont/fma/fma62852
T60 10528-10531 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T61 10633-10640 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T62 11026-11030 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T63 11041-11045 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T64 11388-11392 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T65 11419-11423 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T66 11447-11451 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T67 11633-11638 Body_part denotes Blood http://purl.org/sig/ont/fma/fma9670
T68 11802-11806 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T69 11813-11817 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T70 11828-11834 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T71 12067-12073 Body_part denotes Genome http://purl.org/sig/ont/fma/fma84116
T72 12106-12112 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T73 12144-12148 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T74 12152-12156 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T75 12627-12633 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738
T76 13194-13198 Body_part denotes nose http://purl.org/sig/ont/fma/fma46472
T77 13487-13493 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T78 13818-13824 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T79 13918-13924 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T80 14005-14011 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T81 14098-14100 Body_part denotes nt http://purl.org/sig/ont/fma/fma82740
T82 14105-14107 Body_part denotes aa http://purl.org/sig/ont/fma/fma82739
T83 14280-14282 Body_part denotes nt http://purl.org/sig/ont/fma/fma82740
T84 14302-14304 Body_part denotes aa http://purl.org/sig/ont/fma/fma82739
T85 14461-14463 Body_part denotes nt http://purl.org/sig/ont/fma/fma82740
T86 14524-14530 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T87 14827-14834 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T88 15032-15039 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T89 15124-15131 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T90 15316-15326 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T91 15345-15353 Body_part denotes tyrosine http://purl.org/sig/ont/fma/fma82768
T92 15392-15396 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T93 15631-15638 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T94 15751-15755 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T95 15867-15878 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739
T96 16804-16808 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T97 16841-16848 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T98 17631-17638 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T99 17862-17869 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T100 17924-17931 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T101 17988-17995 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T102 18685-18692 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T103 19174-19178 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T104 19308-19315 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T105 23722-23726 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T106 23848-23855 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T107 24150-24154 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T108 24291-24298 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T109 26082-26086 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T110 26148-26155 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T111 27144-27148 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T112 27237-27240 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T113 27455-27462 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T114 27494-27526 Body_part denotes major histocompatibility complex http://purl.org/sig/ont/fma/fma84079
T115 27528-27531 Body_part denotes MHC http://purl.org/sig/ont/fma/fma84079
T116 27643-27646 Body_part denotes MHC http://purl.org/sig/ont/fma/fma84079
T117 27709-27712 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T118 27721-27724 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T119 27725-27727 Body_part denotes A3 http://purl.org/sig/ont/fma/fma66599
T120 27729-27732 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T121 27741-27744 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T122 27752-27755 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T123 27819-27822 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T124 27823-27825 Body_part denotes A2 http://purl.org/sig/ont/fma/fma66595
T125 27827-27830 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T126 27839-27842 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T127 27851-27854 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T128 27861-27864 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T129 27873-27876 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T130 27885-27888 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T131 27897-27900 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T132 27906-27909 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T133 27918-27921 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T134 27930-27933 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T135 27942-27945 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T136 27952-27955 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T137 27961-27964 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T138 27970-27973 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T139 28053-28056 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T140 28057-28059 Body_part denotes A1 http://purl.org/sig/ont/fma/fma66592
T141 28061-28064 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T142 28073-28076 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T143 28085-28088 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T144 28097-28100 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T145 28109-28112 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T146 28121-28124 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T147 28131-28134 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T148 28143-28146 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T149 28152-28155 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T150 28220-28223 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T151 28229-28232 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T152 28241-28244 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T153 28253-28256 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T154 28265-28268 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T155 28275-28278 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T156 28364-28367 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T157 28376-28379 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T158 28388-28391 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T159 28397-28400 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T160 28406-28409 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T161 28418-28421 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T162 28430-28433 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T163 28442-28445 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T164 28454-28457 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T165 28466-28469 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T166 28478-28481 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T167 28488-28491 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T168 28497-28500 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T169 28506-28509 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T170 28514-28517 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T171 28522-28525 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T172 28535-28538 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T173 28624-28627 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T174 28636-28639 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T175 28648-28651 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T176 28652-28654 Body_part denotes A3 http://purl.org/sig/ont/fma/fma66599
T177 28656-28659 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T178 28668-28671 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T179 28678-28681 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T180 28742-28745 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T181 28746-28748 Body_part denotes A1 http://purl.org/sig/ont/fma/fma66592
T182 28750-28753 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T183 28762-28765 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T184 28766-28768 Body_part denotes A3 http://purl.org/sig/ont/fma/fma66599
T185 28770-28773 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T186 28782-28785 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T187 28793-28796 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T188 28802-28805 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T189 28867-28870 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T190 28871-28873 Body_part denotes A2 http://purl.org/sig/ont/fma/fma66595
T191 28875-28878 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T192 28887-28890 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T193 28899-28902 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T194 28910-28913 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T195 28920-28923 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T196 28929-28932 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T197 28941-28944 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T198 28953-28956 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T199 28965-28968 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T200 28977-28980 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T201 28989-28992 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T202 29001-29004 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T203 29069-29072 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T204 29081-29084 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T205 29093-29096 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T206 29105-29108 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T207 29117-29120 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T208 29129-29132 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T209 29141-29144 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T210 29153-29156 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T211 29165-29168 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T212 29177-29180 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T213 29187-29190 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T214 29199-29202 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T215 29208-29211 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T216 29220-29223 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T217 29233-29236 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T218 29846-29852 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T219 30249-30255 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T220 30309-30315 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T221 30317-30322 Body_part denotes urine http://purl.org/sig/ont/fma/fma12274
T222 30327-30332 Body_part denotes stool http://purl.org/sig/ont/fma/fma64183
T223 30401-30405 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T224 30476-30482 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T225 30648-30654 Body_part denotes saliva http://purl.org/sig/ont/fma/fma59862
T226 30702-30708 Body_part denotes saliva http://purl.org/sig/ont/fma/fma59862
T227 30742-30745 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T228 30830-30832 Body_part denotes nt http://purl.org/sig/ont/fma/fma82740
T229 31403-31413 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T230 31747-31754 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T231 31994-32001 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T232 32195-32202 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T233 32382-32389 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T234 32486-32496 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T235 32852-32858 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T236 32973-32981 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T237 32993-33000 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T238 33103-33107 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T239 33248-33252 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T240 33330-33337 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T241 33640-33647 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T242 34007-34011 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T243 34112-34116 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T244 34341-34348 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T245 34435-34439 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T246 34609-34616 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T247 34653-34657 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T248 34676-34683 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T249 34885-34889 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T250 35082-35085 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T251 35131-35134 Body_part denotes HLA http://purl.org/sig/ont/fma/fma84795
T252 36330-36337 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T253 36511-36515 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T254 36544-36551 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T255 37040-37047 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T256 37132-37139 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T2 4375-4380 Body_part denotes Blood http://purl.obolibrary.org/obo/UBERON_0000178
T3 4385-4391 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341
T4 11633-11638 Body_part denotes Blood http://purl.obolibrary.org/obo/UBERON_0000178
T5 12627-12633 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341
T6 13194-13198 Body_part denotes nose http://purl.obolibrary.org/obo/UBERON_0000004
T7 30309-30315 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T8 30317-30322 Body_part denotes urine http://purl.obolibrary.org/obo/UBERON_0001088
T9 30327-30332 Body_part denotes stool http://purl.obolibrary.org/obo/UBERON_0001988
T10 30476-30482 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T11 30648-30654 Body_part denotes saliva http://purl.obolibrary.org/obo/UBERON_0001836
T12 30702-30708 Body_part denotes saliva http://purl.obolibrary.org/obo/UBERON_0001836

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T22 185-195 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T23 269-302 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T24 304-308 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T25 697-705 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T26 697-701 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T27 721-729 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T28 721-725 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T29 800-809 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T30 1469-1473 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T31 1603-1611 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T32 1603-1607 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T33 1655-1663 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T34 1655-1659 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T35 1729-1737 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T36 1729-1733 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T37 1932-1940 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T38 1932-1936 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T39 2271-2275 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T40 2321-2329 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T41 2321-2325 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T42 2441-2449 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T43 2441-2445 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T44 2573-2581 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T45 2573-2577 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T46 2661-2669 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T47 2661-2665 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T48 3510-3518 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T49 3510-3514 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T50 3658-3666 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T51 3658-3662 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T52 3936-3944 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T53 3936-3940 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T54 4027-4035 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T55 4027-4031 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T56 4317-4325 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T57 4317-4321 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T58 4342-4350 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T59 4342-4346 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T60 4398-4400 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T62 4494-4502 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T63 4494-4498 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T64 4505-4514 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T65 4589-4591 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T67 4934-4942 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T68 4934-4938 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T69 5017-5019 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T71 5196-5204 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T72 5196-5200 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T73 5590-5598 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T74 5590-5594 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T75 5700-5702 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T77 5763-5771 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T78 5763-5767 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T79 6464-6467 Disease denotes CLC http://purl.obolibrary.org/obo/MONDO_0004315
T80 6501-6504 Disease denotes CLC http://purl.obolibrary.org/obo/MONDO_0004315
T81 6594-6602 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T82 6594-6598 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T83 6638-6646 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T84 6638-6642 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T85 7354-7362 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T86 7354-7358 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T87 7441-7449 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T88 7441-7445 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T89 7600-7608 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T90 7600-7604 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T91 8061-8069 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T92 8061-8065 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T93 8569-8577 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T94 8569-8573 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T95 11207-11215 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T96 11207-11211 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T97 11257-11259 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T99 11272-11274 Disease denotes NS http://purl.obolibrary.org/obo/MONDO_0009735
T100 11336-11344 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T101 11336-11340 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T102 11485-11487 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T104 11488-11490 Disease denotes NS http://purl.obolibrary.org/obo/MONDO_0009735
T105 11681-11689 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T106 11681-11685 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T107 11879-11926 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T108 11879-11912 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T109 11928-11936 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T110 11928-11932 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T111 12026-12034 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T112 12026-12030 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T113 12622-12633 Disease denotes sore throat http://purl.obolibrary.org/obo/MONDO_0002258
T114 12888-12897 Disease denotes diarrhoea http://purl.obolibrary.org/obo/MONDO_0001673
T115 12931-12933 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T117 13099-13101 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T119 13188-13198 Disease denotes runny nose http://purl.obolibrary.org/obo/MONDO_0003014
T120 13295-13297 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T122 13351-13359 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T123 13351-13355 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T124 13451-13453 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T126 13769-13778 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T127 13807-13815 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T128 13807-13811 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T129 14025-14033 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T130 14025-14029 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T131 14326-14334 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T132 14326-14330 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T133 14597-14605 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T134 14597-14601 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T135 14685-14693 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T136 14685-14689 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T137 14727-14735 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T138 14727-14731 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T139 14838-14885 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T140 14838-14871 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T141 14951-14959 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T142 14951-14955 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T143 15429-15437 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T144 15429-15433 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T145 15479-15487 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T146 15479-15483 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T147 15525-15533 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T148 15525-15529 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T149 15806-15814 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T150 15806-15810 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T151 16863-16910 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T152 16863-16896 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T153 17653-17661 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T154 17653-17657 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T155 17845-17853 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T156 17845-17849 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T157 17907-17915 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T158 17907-17911 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T159 18754-18762 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T160 18754-18758 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T161 19254-19301 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T162 19254-19287 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T163 23794-23841 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T164 23794-23827 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T165 23890-23937 Disease denotes severe acute respiratory syndrome-coronavirus-2 http://purl.obolibrary.org/obo/MONDO_0100096
T166 23890-23923 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T167 24237-24284 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T168 24237-24270 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T169 29587-29595 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T170 29587-29591 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T171 30113-30115 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T173 30469-30471 Disease denotes TS http://purl.obolibrary.org/obo/MONDO_0010979|http://purl.obolibrary.org/obo/MONDO_0016455
T175 30771-30779 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T176 30771-30775 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T177 31369-31377 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T178 31369-31373 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T179 31911-31919 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T180 31911-31915 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T181 31946-31954 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T182 31946-31950 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T183 32216-32224 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T184 32216-32220 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T185 32403-32407 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T186 32418-32426 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T187 32418-32422 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T188 32520-32528 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T189 32520-32524 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T190 32590-32594 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T191 32908-32917 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T192 32953-32961 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T193 32953-32957 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T194 33627-33635 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T195 33627-33631 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T196 33943-33951 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T197 33943-33947 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T198 34236-34244 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T199 34236-34240 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T200 34251-34259 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T201 34251-34255 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T202 34352-34360 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T203 34352-34356 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T204 35515-35523 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T205 35515-35519 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T206 36352-36399 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T207 36352-36385 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T208 36566-36599 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T209 36613-36621 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T210 36613-36617 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T211 36659-36667 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T212 36659-36663 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T213 36886-36933 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T214 36886-36919 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T215 36942-36975 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T216 36977-36985 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T217 36977-36981 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T218 36993-37001 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T219 36993-36997 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T220 37054-37057 Disease denotes CLC http://purl.obolibrary.org/obo/MONDO_0004315
T221 37157-37165 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T222 37157-37161 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T223 37182-37190 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T224 37182-37186 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T23 37-44 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T24 50-51 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T25 123-125 http://purl.obolibrary.org/obo/CLO_0007074 denotes kb
T26 123-125 http://purl.obolibrary.org/obo/CLO_0051988 denotes kb
T27 142-147 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T28 168-173 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T29 178-184 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T30 208-218 http://purl.obolibrary.org/obo/UBERON_0000160 denotes intestinal
T31 208-218 http://www.ebi.ac.uk/efo/EFO_0000834 denotes intestinal
T32 440-441 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T33 458-463 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T34 475-480 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T35 616-621 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T36 962-967 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Virus
T37 1039-1044 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T38 1104-1105 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T39 1139-1144 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T40 1199-1204 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T41 1210-1211 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T42 1457-1460 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T43 1492-1495 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T44 1511-1514 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T45 1553-1559 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T46 1575-1580 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T47 1664-1666 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T48 1842-1845 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T49 1861-1864 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T50 2164-2168 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T51 2227-2230 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T52 2406-2411 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T53 2415-2420 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T54 2590-2591 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T55 2619-2621 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T56 3071-3072 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T57 3121-3124 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T58 4375-4380 http://purl.obolibrary.org/obo/UBERON_0000178 denotes Blood
T59 4375-4380 http://www.ebi.ac.uk/efo/EFO_0000296 denotes Blood
T60 4890-4891 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T61 5172-5179 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T62 5309-5313 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T63 5320-5324 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T64 5334-5338 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T65 5414-5419 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T66 5462-5466 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T67 5576-5581 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T68 5969-5970 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T69 6464-6467 http://purl.obolibrary.org/obo/CLO_0002494 denotes CLC
T70 6501-6504 http://purl.obolibrary.org/obo/CLO_0002494 denotes CLC
T71 7006-7007 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T72 7212-7215 http://purl.obolibrary.org/obo/CLO_0008190 denotes Per
T73 7259-7261 http://purl.obolibrary.org/obo/CLO_0001627 denotes aa
T74 7365-7372 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T75 7832-7838 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T76 8031-8037 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T77 8168-8175 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T78 8335-8342 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T79 8471-8472 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T80 9126-9127 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T81 9245-9246 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T82 9336-9337 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T83 9357-9358 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T84 9538-9539 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T85 9652-9653 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T86 10450-10456 http://purl.obolibrary.org/obo/CL_0000084 denotes T-cell
T87 10503-10508 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T88 10509-10518 http://purl.obolibrary.org/obo/CL_0000738 denotes leucocyte
T89 10562-10567 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T90 10642-10645 http://purl.obolibrary.org/obo/PR_000002979 denotes TAP
T91 11024-11030 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T92 11039-11045 http://purl.obolibrary.org/obo/CL_0000084 denotes T-cell
T93 11064-11080 http://purl.obolibrary.org/obo/PR_000000017 denotes interferon-gamma
T94 11312-11318 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T95 11388-11392 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T96 11419-11423 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T97 11447-11451 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T98 11579-11584 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T99 11633-11638 http://purl.obolibrary.org/obo/UBERON_0000178 denotes Blood
T100 11633-11638 http://www.ebi.ac.uk/efo/EFO_0000296 denotes Blood
T101 11802-11806 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T102 11813-11817 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T103 12097-12100 http://purl.obolibrary.org/obo/CLO_0008190 denotes Per
T104 12144-12148 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T105 12152-12156 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T106 12620-12621 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T107 13040-13041 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T108 13186-13187 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T109 13194-13198 http://www.ebi.ac.uk/efo/EFO_0000828 denotes nose
T110 13779-13784 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T111 14105-14107 http://purl.obolibrary.org/obo/CLO_0001627 denotes aa
T112 14302-14304 http://purl.obolibrary.org/obo/CLO_0001627 denotes aa
T113 14738-14745 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T114 14886-14893 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T115 14902-14909 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T116 15015-15018 http://purl.obolibrary.org/obo/CLO_0037067 denotes Val
T117 15308-15309 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T118 15392-15396 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T119 15646-15654 http://purl.obolibrary.org/obo/UBERON_0007651 denotes junction
T120 15658-15660 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T121 15665-15667 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T122 15665-15667 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T123 15749-15755 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T124 15852-15853 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T125 16467-16469 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T126 16492-16494 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T127 16492-16494 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T128 16704-16705 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T129 16802-16808 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T130 16911-16918 http://purl.obolibrary.org/obo/PR_000018263 denotes Peptide
T131 16985-16988 http://purl.obolibrary.org/obo/CLO_0001178 denotes 243
T132 16985-16988 http://purl.obolibrary.org/obo/CLO_0052433 denotes 243
T133 17338-17339 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T134 19172-19178 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T135 19229-19230 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T136 19232-19233 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T137 19421-19422 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T138 19613-19618 http://purl.obolibrary.org/obo/CLO_0001552 denotes A1085
T139 20220-20224 http://purl.obolibrary.org/obo/CLO_0053731 denotes S467
T140 20468-20471 http://purl.obolibrary.org/obo/CLO_0003609 denotes H69
T141 20781-20782 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T142 20786-20790 http://purl.obolibrary.org/obo/CLO_0001609 denotes A704
T143 20906-20911 http://purl.obolibrary.org/obo/CLO_0001552 denotes A1085
T144 21395-21399 http://purl.obolibrary.org/obo/CLO_0003435 denotes G402
T145 21629-21633 http://purl.obolibrary.org/obo/CLO_0053731 denotes S467
T146 21882-21885 http://purl.obolibrary.org/obo/CLO_0003609 denotes H69
T147 21970-21974 http://purl.obolibrary.org/obo/CLO_0001555 denotes A123
T148 22435-22440 http://purl.obolibrary.org/obo/CLO_0001552 denotes A1085
T149 23132-23136 http://purl.obolibrary.org/obo/CLO_0053731 denotes S467
T150 23380-23383 http://purl.obolibrary.org/obo/CLO_0003609 denotes H69
T151 23720-23726 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T152 24081-24082 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T153 24094-24095 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T154 24148-24154 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T155 24217-24218 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T156 24220-24221 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T157 24390-24391 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T158 24974-24975 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T159 26080-26086 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T160 26201-26202 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T161 26226-26227 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T162 26263-26264 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T163 26283-26284 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T164 26361-26367 http://purl.obolibrary.org/obo/CLO_0001054 denotes 1 244
T165 26433-26436 http://purl.obolibrary.org/obo/CLO_0001375 denotes 455
T166 26444-26447 http://purl.obolibrary.org/obo/CLO_0001379 denotes 465
T167 26646-26647 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T168 27075-27079 http://purl.obolibrary.org/obo/CLO_0001609 denotes A704
T169 27142-27148 http://purl.obolibrary.org/obo/CL_0000084 denotes T-cell
T170 27353-27354 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T171 27463-27471 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T172 27571-27578 http://purl.obolibrary.org/obo/PR_000018263 denotes Peptide
T173 27713-27714 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T174 27725-27727 http://purl.obolibrary.org/obo/CLO_0001577 denotes A3
T175 27733-27734 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T176 27756-27757 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T177 27823-27825 http://purl.obolibrary.org/obo/CLO_0001562 denotes A2
T178 27831-27832 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T179 27843-27844 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T180 27865-27866 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T181 27877-27878 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T182 27889-27890 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T183 27910-27911 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T184 27922-27923 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T185 27934-27935 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T186 27946-27947 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T187 27986-27988 http://purl.obolibrary.org/obo/CLO_0007074 denotes Kb
T188 27986-27988 http://purl.obolibrary.org/obo/CLO_0051988 denotes Kb
T189 28065-28066 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T190 28077-28078 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T191 28089-28090 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T192 28101-28102 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T193 28113-28114 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T194 28125-28126 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T195 28135-28136 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T196 28147-28150 http://purl.obolibrary.org/obo/CLO_0001822 denotes B62
T197 28178-28181 http://purl.obolibrary.org/obo/CLO_0001311 denotes 356
T198 28224-28227 http://purl.obolibrary.org/obo/CLO_0001568 denotes A24
T199 28233-28234 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T200 28245-28246 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T201 28257-28258 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T202 28269-28270 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T203 28291-28293 http://purl.obolibrary.org/obo/CLO_0002709 denotes Db
T204 28322-28325 http://purl.obolibrary.org/obo/CLO_0001405 denotes 511
T205 28368-28369 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T206 28380-28381 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T207 28392-28395 http://purl.obolibrary.org/obo/CLO_0001568 denotes A24
T208 28410-28411 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T209 28422-28423 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T210 28434-28435 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T211 28446-28447 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T212 28458-28459 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T213 28470-28471 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T214 28482-28483 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T215 28501-28504 http://purl.obolibrary.org/obo/CLO_0001822 denotes B62
T216 28510-28512 http://purl.obolibrary.org/obo/PR_000001438 denotes B7
T217 28558-28560 http://purl.obolibrary.org/obo/CLO_0007074 denotes Kb
T218 28558-28560 http://purl.obolibrary.org/obo/CLO_0051988 denotes Kb
T219 28628-28629 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T220 28640-28641 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T221 28652-28654 http://purl.obolibrary.org/obo/CLO_0001577 denotes A3
T222 28660-28661 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T223 28672-28673 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T224 28682-28685 http://purl.obolibrary.org/obo/CLO_0001822 denotes B62
T225 28754-28755 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T226 28766-28768 http://purl.obolibrary.org/obo/CLO_0001577 denotes A3
T227 28774-28775 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T228 28797-28800 http://purl.obolibrary.org/obo/CLO_0001564 denotes A20
T229 28797-28800 http://purl.obolibrary.org/obo/CLO_0050194 denotes A20
T230 28806-28807 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T231 28871-28873 http://purl.obolibrary.org/obo/CLO_0001562 denotes A2
T232 28879-28880 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T233 28891-28892 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T234 28933-28934 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T235 28945-28946 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T236 28957-28958 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T237 28969-28970 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T238 28981-28982 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T239 28993-28994 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T240 29005-29006 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T241 29073-29074 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T242 29085-29086 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T243 29097-29098 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T244 29109-29110 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T245 29121-29122 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T246 29133-29134 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T247 29145-29146 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T248 29157-29158 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T249 29169-29170 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T250 29181-29182 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T251 29191-29192 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T252 29203-29206 http://purl.obolibrary.org/obo/CLO_0001822 denotes B62
T253 29212-29213 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T254 29330-29338 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T255 29407-29415 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T256 29648-29654 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T257 29698-29699 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T258 30236-30237 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T259 30401-30405 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T260 30622-30627 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T261 30668-30670 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T262 30709-30716 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T263 30958-30959 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T264 30979-30981 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T265 31201-31203 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T266 31578-31583 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T267 31632-31633 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T268 31641-31642 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T269 31714-31716 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T270 31717-31719 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T271 31717-31719 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T272 31812-31815 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T273 31864-31865 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T274 31891-31892 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T275 32092-32094 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T276 32092-32094 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T277 32269-32271 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T278 32276-32278 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T279 32276-32278 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T280 33001-33004 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T281 33101-33107 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T282 33181-33183 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T283 33206-33208 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T284 33206-33208 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T285 33246-33252 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T286 33446-33447 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T287 33528-33529 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T288 33651-33652 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T289 33734-33737 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T290 33888-33889 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T291 33920-33923 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T292 34005-34011 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T293 34108-34109 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T294 34110-34116 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T295 34272-34275 http://purl.obolibrary.org/obo/CLO_0001178 denotes 243
T296 34272-34275 http://purl.obolibrary.org/obo/CLO_0052433 denotes 243
T297 34361-34364 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T298 34433-34439 http://purl.obolibrary.org/obo/CL_0000084 denotes T-cell
T299 34618-34619 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T300 34651-34657 http://purl.obolibrary.org/obo/CL_0000084 denotes T-cell
T301 34693-34694 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T302 34883-34889 http://purl.obolibrary.org/obo/CL_0000084 denotes T-cell
T303 34970-34972 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T304 35013-35015 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T305 35013-35015 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T306 35074-35075 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T307 35105-35106 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T308 35111-35112 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T309 35574-35577 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T310 35666-35671 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T311 35934-35939 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T312 36090-36093 http://purl.obolibrary.org/obo/CLO_0002941 denotes EPI
T313 36109-36112 http://purl.obolibrary.org/obo/CLO_0002941 denotes EPI
T314 36445-36446 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T315 36459-36460 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T316 36509-36515 http://purl.obolibrary.org/obo/CL_0000236 denotes B-cell
T317 36818-36819 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T318 36831-36832 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T319 37054-37057 http://purl.obolibrary.org/obo/CLO_0002494 denotes CLC
T320 37194-37196 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T321 37247-37249 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T322 37247-37249 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T5 1496-1498 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T6 1515-1517 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T7 1846-1848 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T8 1865-1867 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T9 1916-1921 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T10 2121-2128 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T11 2188-2199 Chemical denotes angiotensin http://purl.obolibrary.org/obo/CHEBI_48433
T12 2338-2350 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T13 3763-3770 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T14 4398-4400 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T15 4589-4591 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T16 5017-5019 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T17 5700-5702 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T18 6880-6884 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617
T19 7109-7119 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T20 7121-7123 Chemical denotes nt http://purl.obolibrary.org/obo/CHEBI_36976
T21 7195-7199 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617
T22 7221-7231 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T23 7247-7257 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T24 7247-7252 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T25 7253-7257 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T26 7259-7261 Chemical denotes aa http://purl.obolibrary.org/obo/CHEBI_33709
T27 7522-7529 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T28 7534-7541 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T29 7621-7633 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T30 7744-7751 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T31 8086-8093 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T32 8168-8175 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T33 8335-8342 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T34 8586-8593 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T35 8829-8831 Chemical denotes PI http://purl.obolibrary.org/obo/CHEBI_28874|http://purl.obolibrary.org/obo/CHEBI_53806|http://purl.obolibrary.org/obo/CHEBI_61484|http://purl.obolibrary.org/obo/CHEBI_74790
T39 8846-8853 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T40 8947-8949 Chemical denotes PI http://purl.obolibrary.org/obo/CHEBI_28874|http://purl.obolibrary.org/obo/CHEBI_53806|http://purl.obolibrary.org/obo/CHEBI_61484|http://purl.obolibrary.org/obo/CHEBI_74790
T44 9198-9205 Chemical denotes solvent http://purl.obolibrary.org/obo/CHEBI_46787
T45 9225-9227 Chemical denotes PI http://purl.obolibrary.org/obo/CHEBI_28874|http://purl.obolibrary.org/obo/CHEBI_53806|http://purl.obolibrary.org/obo/CHEBI_61484|http://purl.obolibrary.org/obo/CHEBI_74790
T49 9494-9505 Chemical denotes amino acids http://purl.obolibrary.org/obo/CHEBI_33709
T50 9494-9499 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T51 9500-9505 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T52 9590-9597 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T53 9708-9715 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T54 9987-9994 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T55 10075-10083 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T56 10202-10211 Chemical denotes molecules http://purl.obolibrary.org/obo/CHEBI_25367
T57 10519-10526 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T58 10633-10640 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T59 11064-11074 Chemical denotes interferon http://purl.obolibrary.org/obo/CHEBI_52999
T60 11075-11080 Chemical denotes gamma http://purl.obolibrary.org/obo/CHEBI_30212
T61 11257-11259 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T62 11272-11274 Chemical denotes NS http://purl.obolibrary.org/obo/CHEBI_73426
T63 11485-11487 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T64 11488-11490 Chemical denotes NS http://purl.obolibrary.org/obo/CHEBI_73426
T65 12931-12933 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T66 13099-13101 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T67 13295-13297 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T68 13451-13453 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T69 14098-14100 Chemical denotes nt http://purl.obolibrary.org/obo/CHEBI_36976
T70 14105-14107 Chemical denotes aa http://purl.obolibrary.org/obo/CHEBI_33709
T71 14280-14282 Chemical denotes nt http://purl.obolibrary.org/obo/CHEBI_36976
T72 14302-14304 Chemical denotes aa http://purl.obolibrary.org/obo/CHEBI_33709
T73 14461-14463 Chemical denotes nt http://purl.obolibrary.org/obo/CHEBI_36976
T74 14923-14930 Chemical denotes magenta http://purl.obolibrary.org/obo/CHEBI_87661
T75 14995-14998 Chemical denotes Arg http://purl.obolibrary.org/obo/CHEBI_16467|http://purl.obolibrary.org/obo/CHEBI_29952
T77 14999-15002 Chemical denotes Ile http://purl.obolibrary.org/obo/CHEBI_17191|http://purl.obolibrary.org/obo/CHEBI_30009
T79 15011-15014 Chemical denotes Ala http://purl.obolibrary.org/obo/CHEBI_16977|http://purl.obolibrary.org/obo/CHEBI_46217
T81 15015-15018 Chemical denotes Val http://purl.obolibrary.org/obo/CHEBI_16414|http://purl.obolibrary.org/obo/CHEBI_30015
T83 15032-15039 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T84 15124-15131 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T85 15316-15326 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T86 15345-15361 Chemical denotes tyrosine residue http://purl.obolibrary.org/obo/CHEBI_32789
T87 15345-15353 Chemical denotes tyrosine http://purl.obolibrary.org/obo/CHEBI_18186
T88 15631-15638 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T89 15665-15667 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T90 15867-15878 Chemical denotes amino acids http://purl.obolibrary.org/obo/CHEBI_33709
T91 15867-15872 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T92 15873-15878 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T93 16492-16494 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T94 16607-16609 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T95 16760-16767 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T96 16791-16793 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T97 16841-16848 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T98 16911-16918 Chemical denotes Peptide http://purl.obolibrary.org/obo/CHEBI_16670
T99 17631-17638 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T100 17862-17869 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T101 17924-17931 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T102 17988-17995 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T103 18236-18238 Chemical denotes PI http://purl.obolibrary.org/obo/CHEBI_28874|http://purl.obolibrary.org/obo/CHEBI_53806|http://purl.obolibrary.org/obo/CHEBI_61484|http://purl.obolibrary.org/obo/CHEBI_74790
T107 18277-18279 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T108 18685-18692 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T109 18879-18881 Chemical denotes IV http://purl.obolibrary.org/obo/CHEBI_74327
T110 19153-19155 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T111 19308-19315 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T112 23848-23855 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T113 24075-24077 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T114 24291-24298 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T115 26061-26063 Chemical denotes IV http://purl.obolibrary.org/obo/CHEBI_74327
T116 26148-26155 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T117 26294-26301 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T118 26659-26666 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T119 27149-27156 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T120 27455-27462 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T121 27463-27471 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T122 27571-27578 Chemical denotes Peptide http://purl.obolibrary.org/obo/CHEBI_16670
T123 27983-27985 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T124 27990-27992 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T125 28288-28290 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T126 28291-28293 Chemical denotes Db http://purl.obolibrary.org/obo/CHEBI_33349
T127 28295-28297 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T128 28302-28304 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T129 28548-28550 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T130 28555-28557 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T131 28562-28564 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T132 29245-29247 Chemical denotes H2 http://purl.obolibrary.org/obo/CHEBI_18276
T133 29330-29338 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T134 29407-29415 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T135 30113-30115 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T136 30469-30471 Chemical denotes TS http://purl.obolibrary.org/obo/CHEBI_73664
T137 30830-30832 Chemical denotes nt http://purl.obolibrary.org/obo/CHEBI_36976
T138 31403-31413 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T139 31403-31408 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T140 31409-31413 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T141 31697-31704 Chemical denotes glycans http://purl.obolibrary.org/obo/CHEBI_18154
T142 31717-31719 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T143 31747-31754 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T144 31994-32001 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T145 32092-32094 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T146 32195-32202 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T147 32276-32278 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T148 32382-32389 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T149 32486-32496 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T150 32973-32981 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T151 32993-33000 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T152 33206-33208 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T153 33330-33337 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T154 33562-33569 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T155 33640-33647 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T156 33683-33690 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T157 33726-33733 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T158 33912-33919 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T159 34027-34034 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T160 34341-34348 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T161 34609-34616 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T162 34676-34683 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T163 35013-35015 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T164 35872-35882 Chemical denotes antivirals http://purl.obolibrary.org/obo/CHEBI_22587
T165 36330-36337 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T166 36544-36551 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T167 36709-36716 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T168 36728-36735 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T169 36748-36755 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T170 36766-36773 Chemical denotes epitope http://purl.obolibrary.org/obo/CHEBI_53000
T171 37040-37047 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T172 37132-37139 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T173 37247-37249 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T3 2138-2163 http://purl.obolibrary.org/obo/GO_0051701 denotes interaction with the host
T4 3386-3397 http://purl.obolibrary.org/obo/GO_0006810 denotes transported
T5 3588-3609 http://purl.obolibrary.org/obo/GO_0001171 denotes reverse transcription
T6 3596-3609 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T7 4609-4624 http://purl.obolibrary.org/obo/GO_0046794 denotes viral transport
T8 4615-4624 http://purl.obolibrary.org/obo/GO_0006810 denotes transport
T9 5326-5333 http://purl.obolibrary.org/obo/GO_0004526 denotes RNase P
T10 9949-9971 http://purl.obolibrary.org/obo/GO_0006487 denotes N-linked glycosylation
T11 9958-9971 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T12 10155-10187 http://purl.obolibrary.org/obo/GO_0046776 denotes major histocompatibility complex
T13 10189-10192 http://purl.obolibrary.org/obo/GO_0046776 denotes MHC
T14 10333-10341 http://purl.obolibrary.org/obo/GO_0007612 denotes learning
T15 10612-10621 http://purl.obolibrary.org/obo/GO_0006810 denotes transport
T16 11712-11733 http://purl.obolibrary.org/obo/GO_0001171 denotes reverse transcription
T17 11720-11733 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T18 12158-12165 http://purl.obolibrary.org/obo/GO_0004526 denotes Rnase P
T19 16552-16567 http://purl.obolibrary.org/obo/GO_0006955 denotes immune response
T20 16612-16634 http://purl.obolibrary.org/obo/GO_0006487 denotes N-linked glycosylation
T21 16621-16634 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T22 16678-16691 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T23 27494-27526 http://purl.obolibrary.org/obo/GO_0046776 denotes major histocompatibility complex
T24 27528-27531 http://purl.obolibrary.org/obo/GO_0046776 denotes MHC
T25 27643-27646 http://purl.obolibrary.org/obo/GO_0046776 denotes MHC
T26 33751-33773 http://purl.obolibrary.org/obo/GO_0006487 denotes N-linked glycosylation
T27 33760-33773 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T1 20483-20486 GlycoEpitope denotes G72 http://www.glycoepitope.jp/epitopes/AN0029
T2 21897-21900 GlycoEpitope denotes G72 http://www.glycoepitope.jp/epitopes/AN0029
T3 23395-23398 GlycoEpitope denotes G72 http://www.glycoepitope.jp/epitopes/AN0029
T4 26678-26681 GlycoEpitope denotes G72 http://www.glycoepitope.jp/epitopes/AN0029

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T22 0-126 Sentence denotes The Coronaviridae family encompasses viruses with a single-stranded, positive-sense RNA genome of size approximately 26-32 kb.
T23 127-255 Sentence denotes Initially, the virus was associated with human and animal infections that caused intestinal as well as respiratory infections12.
T24 256-424 Sentence denotes In 2002, the severe acute respiratory syndrome (SARS) coronavirus (CoV) outbreak that claimed the lives of many people in China raised the alarm towards these viruses2.
T25 425-582 Sentence denotes Further, after a decade, another human pathogenic virus emerged, Middle East respiratory syndrome CoV (MERS-CoV) that affected the Middle Eastern countries2.
T26 583-746 Sentence denotes Current knowledge identifies six virus groups that can infect humans3 in the Coronaviridae family, which includes SARS-CoV (now termed as SARS-CoV-1) and MERS-CoV.
T27 747-866 Sentence denotes Recently in December 2019, China reported cases with pneumonia of unknown aetiology in the Hubei province, Wuhan city4.
T28 867-961 Sentence denotes Further analysis of these cases was carried out to identify the causative agent of pneumonia5.
T29 962-1134 Sentence denotes Virus isolation and genomic characterization of the complete sequence of the virus through next-generation sequencing (NGS), identified it as a novel CoV, named 2019-nCoV3.
T30 1135-1237 Sentence denotes The virus characterization revealed that it is an enveloped RNA virus with a genome size of 29,903 bp.
T31 1238-1387 Sentence denotes The phylogenetic analysis of the sequence showed that it belonged to the Sarbecovirus subgenus of genus Betacoronavirus and the family Coronaviridae.
T32 1388-1624 Sentence denotes The sequence was closely related (~87.5% sequence similarity) to two bat-derived SARS-like CoV strains (bat-SL-CoVZC45 and bat-SL-CoVZXC21) that are known to infect humans, including the virus which led to the 2003 SARS-CoV-1 outbreak6.
T33 1625-1667 Sentence denotes The 2019-nCoV is now named as SARS-CoV-27.
T34 1668-1837 Sentence denotes Further, based on SimPlot analyses, it was demonstrated that SARS-CoV-2 was more closely related to the BatCoV RaTG13 sequence (~96.3% similarity) throughout the genome.
T35 1838-2073 Sentence denotes The bat-SL-CoVZC45 and bat-SL-CoVZXC21 strains clustered differently from the group formed by SARS-CoV-2 and BatCoV RaTG13 in the region spanning the 3′-end of open reading frame (ORF)1a, the ORF1b and almost half of the spike region8.
T36 2074-2283 Sentence denotes The receptor-binding domain (RBD) of the spike protein mediates interaction with the host cell receptor9, and the angiotensin-converting enzyme 2 (ACE2) has been identified as the receptor for the SARS-CoVs10.
T37 2284-2401 Sentence denotes Specific mutations in the RBD of the SARS-CoV-2 spike glycoprotein were found to have enhanced binding to the ACE211.
T38 2402-2507 Sentence denotes The human-to-human transmission of the SARS-CoV-2 created an alert with the increasing number of cases12.
T39 2508-2634 Sentence denotes The WHO report dated February 28, 2020 confirmed 83,652 cases of SARS-CoV-2, with a total of 2,858 deaths from 52 countries12.
T40 2635-2818 Sentence denotes After the first report of SARS-CoV-2 from Wuhan, China, the Government of India reviewed and initiated multisectoral measures for the mitigation of this emerging public health crisis.
T41 2819-3005 Sentence denotes These include point-of-entry surveillance at 21 international airports, enhanced State-level surveillance programmes and preparedness for handling clinical cases in designated hospitals.
T42 3006-3285 Sentence denotes Till date, the Integrated Disease Surveillance Programme (IDSP), a national health programme, Government of India, has collected samples from symptomatic travellers in liaison with the State-level Viral Research and Diagnostic Laboratories (VRDLs), Department of Health Research.
T43 3286-3344 Sentence denotes These VRDLs respond for timely diagnosis during outbreaks.
T44 3345-3521 Sentence denotes The suspected samples were collected and transported to the Indian Council of Medical Research-National Institute of Virology (ICMR-NIV), Pune, for the diagnosis of SARS-CoV-2.
T45 3522-3791 Sentence denotes The specimens of the positive cases were diagnosed with real-time reverse transcription-polymerase chain reaction (RT-PCR)-specific for SARS-CoV-2 using the protocol published by the WHO13 and characterized by complete genome sequencing and epitope prediction analyses.
T46 3792-3980 Sentence denotes These sequences were also compared with the available GenBank sequences to monitor the mutations and understand their relation with other known SARS-CoV-2 available in the public database.
T47 3981-4074 Sentence denotes Here, we report molecular characterization of SARS-CoV-2 sequences from three positive cases.
T48 4076-4094 Sentence denotes Material & Methods
T49 4095-4223 Sentence denotes The clinical samples were referred by the hospital authorities through the Kerala State Health Services for diagnostic purposes.
T50 4224-4328 Sentence denotes Further samples were received from different parts of India for establishing the presence of SARS-CoV-2.
T51 4329-4374 Sentence denotes Detection of SARS-CoV-2 in suspected samples:
T52 4375-4584 Sentence denotes Blood and throat swab (TS) specimens were collected from the suspected cases that complied with the case definition of SARS-CoV-2 infection as per the guidelines of the Ministry of Health and Family Welfare14.
T53 4585-4632 Sentence denotes The TS was collected in viral transport medium.
T54 4633-4796 Sentence denotes These samples were referred to the ICMR-NIV, Pune, India (which is the national reference laboratory for India, also referred as the government's apex laboratory).
T55 4797-4979 Sentence denotes As of February 29, 2020, 881 samples of suspected cases referred from different States, with a travel history to Wuhan, China, and other SARS-CoV-2-affected countries, were screened.
T56 4980-5128 Sentence denotes The viral RNA was extracted from the TS sample using the Magmax RNA extraction kit (Applied Biosystems, USA) as per the manufacturer's instructions.
T57 5129-5325 Sentence denotes The extracted RNA was immediately used for testing the presence of SARS-CoV-2 using the real-time RT-PCR protocol published by the WHO12 for the detection of RdRp (1), RdRp (2), E gene and N gene.
T58 5326-5389 Sentence denotes RNase P gene was used as the internal control for the analysis.
T59 5390-5479 Sentence denotes Confirmatory laboratory tests were performed as per the WHO-recommended test protocols13.
T60 5480-5582 Sentence denotes These samples were also sequenced using the NGS approach to retrieve the complete genome of the virus.
T61 5583-5667 Sentence denotes NGS of SARS-CoV-2 from India - Phylogenetic analysis and molecular characterization:
T62 5668-5808 Sentence denotes The total RNA of three positive TS specimens from Kerala, was extracted from 250-300 μl of the SARS-CoV-2 real-time RT-PCR positive samples.
T63 5809-5921 Sentence denotes QIAamp Viral RNA extraction kit (QIAGEN, Hilden, Germany) was used according to the manufacturer's instructions.
T64 5922-6020 Sentence denotes The extracted RNA was further quantified using a Qubit RNA High-Sensitivity kit (Invitrogen, USA).
T65 6021-6227 Sentence denotes RNA libraries were prepared as per the earlier-defined protocol and quantified using KAPA Library Quantification Kit (Kapa Biosystems, Roche Diagnostics Corporation, USA) as per the manufacturer's protocol.
T66 6228-6326 Sentence denotes Further, individual libraries were neutralized and loaded on the Miniseq platform (Illumina, USA).
T67 6327-6407 Sentence denotes The detailed protocols for the steps undertaken have been published earlier1516.
T68 6408-6523 Sentence denotes The data generated from the machine were analyzed using CLC genomics workbench version 11.0 (CLC, QIAGEN, Germany).
T69 6524-6605 Sentence denotes Reference-based mapping was performed to retrieve the sequence of the SARS-CoV-2.
T70 6606-6827 Sentence denotes Full-length genome sequences of SARS-CoV-2 were downloaded from the GISAID database17 (Supplementary Table I (available from http://www.ijmr.org.in/articles/2020/151/2/images/IndianJMedRes_2020_151_2_200_281471_sm5.pdf)).
T71 6828-7005 Sentence denotes Multiple sequence alignment was performed using the MEGA software version 7.018 with retrieved sequences from two of the three positive cases and the available GISAID sequences.
T72 7006-7211 Sentence denotes A phylogenetic tree was generated using the neighbour joining method and the Kimura-2-parameter as the nucleotide (nt) substitution model with 1000 bootstrap replications as implemented in MEGA software18.
T73 7212-7320 Sentence denotes Per cent nucleotide divergence and amino acid (aa) divergence were calculated using the p-distance method18.
T74 7321-7479 Sentence denotes Mutations specific to the Indian SARS-CoV-2 viruses were identified by comparing the coding regions with respect to the SARS-CoV-2, Wuhan, China (Wuhan hu-1).
T75 7480-7553 Sentence denotes Three-dimensional (3D) model of the spike protein and epitope prediction:
T76 7554-7811 Sentence denotes The pre-fusion structure of the Indian case 1 SARS-CoV-2 spike (S) glycoprotein was modelled using the Swiss-Model server (https://swissmodel.expasy.org/interactive) and the corresponding S protein of Wuhan-Hu-1 (6VSB.PDB) as the template (99.97% identity).
T77 7812-7932 Sentence denotes Sequential (linear) B-cell epitopes were predicted using BepiPred-2.0 server (http://www.cbs.dtu.dk/services/BepiPred/).
T78 7933-8081 Sentence denotes The ABCpred prediction tool (http://crdd.osdd.net/raghava/abcpred/) was also used to identify the B-cell epitopes in the Indian SARS-CoV-2 sequence.
T79 8082-8184 Sentence denotes The epitope prediction probability of >0.8 was set to increase the specificity of the peptide stretch.
T80 8185-8298 Sentence denotes The overlapping epitopes predicted by BepiPred-2.0 online server and the ABCpred prediction tool were identified.
T81 8299-8498 Sentence denotes The antigenicity of the shortlisted peptide sequences was further predicted using the Vaxijen online server (http://www.ddg-pharmfac.net/vaxijen/VaxiJen/VaxiJen.html) with a default threshold of 0.4.
T82 8499-8772 Sentence denotes Discontinuous epitopes on the modelled structure of the Indian case 1 SARS-CoV-2 spike protein were predicted using the online servers, Ellipro (http://tools.iedb.org/ellipro/) and DiscoTope 2.0 (http://tools.iedb.org/discotope/), integrated in the Immune Epitope Database.
T83 8773-8924 Sentence denotes Ellipro predicts epitopes based on the protusion index (PI), wherein the protein shape is approximated as an ellipsoid (Ref for Ellipro and DiscoTope).
T84 8925-9059 Sentence denotes An ellipsoid with the PI value of 0.8 indicates that 80 per cent of the residues are within the ellipsoid and 20 per cent are outside.
T85 9060-9141 Sentence denotes All residues that are outside the 80 per cent ellipsoid will have a score of 0.8.
T86 9142-9220 Sentence denotes Residues with larger scores are associated with greater solvent accessibility.
T87 9221-9260 Sentence denotes The PI value was set to a score of 0.8.
T88 9261-9405 Sentence denotes DiscoTope predicts epitopes using 3D structure and half-sphere exposure as a surface measure in a novel spatial neighbourhood definition method.
T89 9406-9537 Sentence denotes Default values were set for sensitivity (0.47) and specificity (0.75) for selecting the amino acids forming discontinuous epitopes.
T90 9538-9763 Sentence denotes A sensitivity of 0.47 means that 47 per cent of the epitope residues are predicted as part of the epitopes, while a specificity of 0.75 means that 25 per cent of the non-epitope residues are predicted as part of the epitopes.
T91 9764-9917 Sentence denotes Outputs from both the methods were combined, and the final regions were mapped on the modelled 3D-structure as the most probable conformational epitopes.
T92 9918-10064 Sentence denotes In addition, we also predicted N-linked glycosylation sites in the S protein using NetNGlyc 1.0 Server (http://www.cbs.dtu.dk/services/NetNGlyc/).
T93 10065-10246 Sentence denotes The spike proteins were also screened for the presence of potential epitopes presented by major histocompatibility complex (MHC) class I molecules to cytotoxic T lymphocytes (CTLs).
T94 10247-10466 Sentence denotes The online NetCTL1.2 server (http://www.cbs.dtu.dk/services/NetCTL/) based on machine learning techniques such as artificial neural network (ANN) and support vector machine (SVM) was used to predict the T-cell epitopes.
T95 10467-10576 Sentence denotes The prediction was made for all the human leucocyte antigen (HLA) supertypes and the available human alleles.
T96 10577-10712 Sentence denotes The C terminal cleavage, weight of transport-associated protein (TAP) efficiency and threshold for identification were kept as default.
T97 10713-10853 Sentence denotes VaxiJen v2.0 tool was used to predict the antigenicity of the predicted epitopes (http://www.ddg-pharmfac.net/vaxijen/VaxiJen/VaxiJen.html).
T98 10854-10987 Sentence denotes The sequences were further screened to be potential epitopes using the CTLPred online server (http://crdd.osdd.net/raghava/ctlpred/).
T99 10988-11184 Sentence denotes The ability of the predicted linear B-cell and the T-cell epitopes to mount interferon-gamma (IFN-γ) response was assessed using the IFNepitope (http://crdd.osdd.net/raghava/ifnepitope/index.php).
T100 11186-11193 Sentence denotes Results
T101 11194-11239 Sentence denotes Detection of SARS-CoV-2 in suspected samples:
T102 11240-11424 Sentence denotes Three of the 881 TS/nasal swab (NS) specimens from the suspected cases, tested positive for the SARS-CoV-2 using the real-time RT-PCR specific to E gene, RdRp (1), RdRp (2) and N gene.
T103 11425-11501 Sentence denotes The Ct value of the E gene ranged from 19.8 to 34.5 for the TS/NS specimens.
T104 11502-11632 Sentence denotes Detailed Ct values for the real-time RT-PCRs specific to the above-mentioned genes of the positive specimens are given in Table I.
T105 11633-11692 Sentence denotes Blood samples were found to be negative for the SARS-CoV-2.
T106 11693-11954 Sentence denotes Table I Real-time reverse transcription-polymerase chain reaction (RT-PCR) values for RdRp (1), RdRp (2), E gene and N gene, per cent genome coverage recovered and reads mapped for the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) positive cases
T107 11955-12121 Sentence denotes Positive cases Ct values for real-time RT-PCR for the confirmation of SARS-CoV-2 Relevant reads Total reads Genome length recovered (bp) Per cent genome coverage
T108 12122-12182 Sentence denotes RdRp (1) RdRp (2) E gene N gene Rnase P internal control
T109 12183-12260 Sentence denotes Case 1 33.33 27.93 34.5 33.90 Positive 20,096 5,615,846 29,854 99.83
T110 12261-12328 Sentence denotes Case 2 24.6 29 19.8 38 Positive 610 8,587,146 16,047 53.66
T111 12329-12549 Sentence denotes Case 3 34.17 32.64 28.98 36.35 Positive 11,296 1,405,038 29,851 99.83 Case 1 travelled from Wuhan, China, reached India on January 23, 2020 and further travelled to the final destination of Kerala on January 24.
T112 12550-12708 Sentence denotes This individual developed cough on January 25 and further experienced a sore throat and mild fever and was admitted to the General Hospital, Thrissur, Kerala.
T113 12709-12832 Sentence denotes The second case travelled from Wuhan and had close contact with case 1 during the travel to the final destination in India.
T114 12833-12988 Sentence denotes Case 2 developed similar symptoms along with fever and diarrhoea on January 26, and the collected TS specimens were referred to the ICMR-NIV on January 28.
T115 12989-13077 Sentence denotes The second case was hospitalized on January 30, in a medical college, Alappuzha, Kerala.
T116 13078-13137 Sentence denotes The clinical sample (TS) was collected on January 31, 2020.
T117 13138-13294 Sentence denotes Case 3 travelled from China to India, developed a runny nose on January 30 and was admitted to the General Hospital, Kasaragod, Kerala, on January 31, 2020.
T118 13295-13343 Sentence denotes TS specimens were collected on January 31, 2020.
T119 13344-13527 Sentence denotes NGS of SARS-CoV-2 from India - Phylogenetic analysis and molecular characterization: NGS analysis from the TS specimens retrieved two complete genome sequences from case 1 and case 3.
T120 13528-13697 Sentence denotes The complete genomic sequence data for case 2 could not be recovered due to the lower kappa concentration of the sample and hence not included in the study for analysis.
T121 13698-13857 Sentence denotes The FastQ files were reference mapped with the available Wuhan seafood pneumonia virus (Wuhan Hu-1) complete SARS-CoV-2 genome (accession number: NC 045512.2).
T122 13858-13979 Sentence denotes The total reads which were mapped and the percentage of the genome recovered for the two cases are summarized in Table I.
T123 13980-14189 Sentence denotes Analysis of the complete genome sequences of SARS-CoV-2 from the positive cases in India revealed that the percentage nt and aa differences between case 1 and case 3 were 0.038 and 0.10 per cent, respectively.
T124 14190-14318 Sentence denotes The sequences of case 1 and case 3 diverged from the Wuhan-Hu1 sequence by 0.017 per cent nt and 0.041 per cent aa respectively.
T125 14319-14466 Sentence denotes Indian SARS-CoV-2 clustered with the Sarbecovirus subgenus of the Betacoronavirus genus and was closest to the BatCoV RaTG13 sequence (96.09% nt)8.
T126 14467-14627 Sentence denotes The phylogenetic comparison showed the clustering of the genome sequences of case 1 and case 3 with the existing sequences of the SARS-CoV-2 sequences (Fig. 1).
T127 14628-14715 Sentence denotes The phylogeny revealed emerging heterogeneity within the SARS-CoV-2 sequences globally.
T128 14716-14784 Sentence denotes The Indian SARS-CoV-2 viruses were positioned in different clusters.
T129 14785-14894 Sentence denotes Fig. 1 Phylogenetic tree of the complete genomes of severe acute respiratory syndrome coronavirus 2 viruses.
T130 14895-14943 Sentence denotes Indian viruses are shown in magenta font colour.
T131 14944-15076 Sentence denotes Indian SARS-CoV-2 sequences showed two changes 408 Arg→Ile and 930 Ala→Val in the spike protein compared to the Wuhan Hu-1 sequence.
T132 15077-15295 Sentence denotes The mutations were further mapped on the spike protein model of the Indian sequence (Supplementary Fig. 1 (available from http://www.ijmr.org.in/articles/2020/151/2/images/IndianJMedRes_2020_151_2_200_281471_sm6.pdf)).
T133 15296-15500 Sentence denotes Deletion of a three-nucleotide stretch, encoding tyrosine residue at position 144, of the spike gene was also observed in the Indian SARS-CoV-2 from case 1 when compared to the other SARS-CoV-2 sequences.
T134 15501-15709 Sentence denotes As noted in the earlier SARS-CoV-2 sequences, both the Indian sequences possessed the polybasic cleavage site (RRAR) in the spike protein at the junction of S1 and S2, the two subunits of the spike protein19.
T135 15710-15730 Sentence denotes Epitope predictions:
T136 15731-15904 Sentence denotes Thirty one linear B-cell epitopes were predicted by Bepipred in the Indian SARS-CoV-2, of which three were found to have a length of <6 amino acids and hence not considered.
T137 15905-16034 Sentence denotes Linear epitopes were also predicted using the ABCpred prediction tool, which predicted 47 epitopes based on the threshold of 0.8.
T138 16035-16113 Sentence denotes Regions common to both the prediction methods (n=17) were identified manually.
T139 16114-16299 Sentence denotes The 17 epitopes were screened for their antigenicity using the VaxiJen v2.0 tool (http://www.ddg-pharmfac.net/vaxijen/VaxiJen/VaxiJen.html), and nine of these epitopes were shortlisted.
T140 16300-16430 Sentence denotes These epitopes were further screened for their ability to elicit an IFN-γ response, which was predicted using the IFNepitope tool.
T141 16431-16611 Sentence denotes Finally, five epitopes, four in the S1 domain and one in the S2 domain, were predicted, which could possibly generate an immune response and suppress the IFN-γ response (Table II).
T142 16612-16784 Sentence denotes N-linked glycosylation site prediction revealed that two putative glycosylation sites (with a low value for jury agreement) were present within the epitope stretch 328-344.
T143 16785-16910 Sentence denotes Table II Linear B-cell epitopes predicted on the spike protein of the Indian severe acute respiratory syndrome coronavirus 2
T144 16911-16984 Sentence denotes Peptide Epitope probability Vaxigen score Interferon (IFN)-γ response#
T145 16985-17046 Sentence denotes 243-HRSYLTPGDSSSGWTA-258 0.92 Antigen (0.602) Negative (1)
T146 17047-17113 Sentence denotes 327-FPNITNLCPFGEVFNA-342 0.82 Antigen (0.606) Negative (−0.132)
T147 17114-17175 Sentence denotes 404-EVIQIAPGQTGKIADY-419 0.86 Antigen (1.231) Negative (1)
T148 17176-17243 Sentence denotes 413-TGKIADYNYKLPDDFT-428 0.84 Antigen (0.9642) Negative (−0.334)
T149 17244-17307 Sentence denotes 1204-YEQYIKWPWYIWLGFI-1219 0.89 Antigen (0.951) Negative (1)
T150 17308-17409 Sentence denotes Epitopes were predicted using a combination of the Bepipred server and the ABCpred prediction server.
T151 17410-17469 Sentence denotes The antigenicity was predicted using the VaxiJen v2.0 tool.
T152 17470-17734 Sentence denotes IFN-γ response was predicted using the INFepitope server. #Values in bracket show prediction score given by the software The discontinuous epitopes in the spike protein of the Indian SARS-CoV-2 were further identified using multiple methods, Ellipro and DiscoTope.
T153 17735-17870 Sentence denotes Conformational epitopes based on these methods were mapped on the pre-fusion structure of the modelled Indian SARS-CoV-2 spike protein.
T154 17871-17996 Sentence denotes The newly released structure of the SARS-CoV-2 spike protein was used as the template for modelling the Indian spike protein.
T155 17997-18182 Sentence denotes Ramachandran plot statistics revealed 83.7 per cent of the residues to be in the core region, 14.4 per cent in the additionally allowed region and 0.5 per cent in the disallowed region.
T156 18183-18394 Sentence denotes Four epitopes were predicted by Ellipro based on the PI threshold of 0.8 (Supplementary Table II (available from http:/ /www. ijmr.org.in/articles/2020/151/2/images/IndianJMedRes_2020_151_2_200_281471_sm7.pdf)).
T157 18395-18579 Sentence denotes The result from the DiscoTope is presented in Supplementary Table III (available from http://www.ijmr.org.in/articles/ 2020/151/2/ images/ IndianJMedRes_2020_151_2_200_281471_sm8.pdf).
T158 18580-18640 Sentence denotes The mapped conformational epitopes are depicted in Figure 2.
T159 18641-19132 Sentence denotes For the purpose of comparison, the Indian S protein sequence was also modelled using the pre-fusion structure of SARS-CoV-1 (6ACC.PDB; 87.29% identity), and the results for the conformational epitopes predicted are in Supplementary Table IV (available from http://www.ijmr.org.in/articles/2020/151/2/images/IndianJMedRes_2020_151_2_200_28147 1_sm9.pdf and Supplementary Figure 2 (available from http://www.ijmr.org.in/articles/2020/151/2/images/IndianJMedRes_2020_151_2_200_281471_sm10.pdf).
T160 19133-19350 Sentence denotes Supplementary Table II Conformational B-cell epitopes predicted by Ellipro based on the chains A, B and C of the Indian severe acute respiratory syndrome coronavirus 2 spike protein modelled structure (template used:
T161 19351-19361 Sentence denotes 6VSB.PDB).
T162 19362-19414 Sentence denotes Ellipro protusion Index threshold set to 0.8 cut-off
T163 19415-19437 Sentence denotes Chain A Ellipro Score
T164 19438-19502 Sentence denotes 1 D1137, P1138, L1139, Q1140, P1141, E1142, L1143, D1144 0.984
T165 19503-19850 Sentence denotes 2 Y705, S706, N707, N708, S709, T1074, T1075, A1076, P1077, A1078, I1079, C1080, H1081, D1082, G1083, K1084, A1085, H1086, F1087, P1088, R1089, E1090, G1091, F1093, V1094, S1095, N1096, G1097, T1098, H1099, W1100, F1101, V1102, Y1108, E1109, P1110, Q1111, I1112, I1113, T1114, T1115, D1116, N1117, T1118, F1119, V1120, S1121, G1122, N1123, 0.906
T166 19851-20459 Sentence denotes 3 N341, A342, T343, R344, F345, A346, S347, V348, Y349, A350, W351, N352, S397, F398, V399, I400, R401, E404, Q412, T413, G414, K415, I416, A417, D418, Y419, N420, Y421, K422, L423, S436, N437, N438, L439, D440, S441, K442, V443, G444, G445, N446, Y447, N448, Y449, L450, Y451, R452, L453, F454, R455, K456, S457, N458, L459, K460, P461, F462, E463, R464, D465, I466, S467, T468, E469, I470, Y471, Q472, A473, G474, S475, T476, P477, C478, N479, G480, V481, G483, F484, N485, C486, Y487, F488, P489, L490, Q491, S492, Y493, G494, F495, Q496, P497, T498, N499, G500, V501, G502, Y503, Q504, P505, R507 0.887
T167 20460-20774 Sentence denotes 4 I68, H69, V70, S71, G72, T73, N74, G75, T76, K77, R78, S98, I100, C136, D138, F140, G142, Y143, H144, K145, N146, N147, K148, S149, W150, M151, E152, S153, E154, F155, R156, N183, F184, A241, L242, H243, R244, S245, Y246, L247, T248, P249, G250, D251, S252, S253, S254, G255, W256, T257, A258, G259, A260 0.876
T168 20775-20782 Sentence denotes Chain B
T169 20783-21319 Sentence denotes 1 A704, Y705, S706, N707, N708, S709, F1073, T1074, T1075, A1076, P1077, A1078, I1079, C1080, H1081, D1082, G1083, K1084, A1085, H1086, F1087, P1088, R1089,E1090, G1091, V1092,F1093, V1094, S1095, N1096, G1097, T1098, H1099, W1100, F1101, V1102, T1103, Q1104, R1105, F1107, Y1108, E1109,P1110, Q1111, I1112, I1113, T1114, T1115, D1116, N1117, T1118, F1119, V1120, S1121, G1122, N1123, C1124, D1125, V1126, V1127, I1128, G1129, I1130, V1131, N1132, N1133, T1134, V1135, Y1136, D1137, P1138, L1139, Q1140,P1141,E1142, L1143, D1144 0.902
T170 21320-21868 Sentence denotes 2 N341, A342, T343, F345, A346, S347, V348, Y349, A350, W351, V399, R401, G402, T413, G414, K415, D418, Y419, N420, Y421, K422, S436, N437, N438, L439, D440, S441, K442, V443, G444, G445, N446, Y447, N448, Y449, L450, Y451, R452, L453, F454, R455, K456, S457, N458, L459, K460, P461, E463, R464, D465, I466, S467, T468, E469, I470, Y471, Q472, A473, G474, S475, T476, P477, C478, N479, G480, V481, E482, G483, F484, N485, C486, Y487, F488, P489, L490, Q491, S492, Y493, G494, F495, Q496, P497, T498, N499, G500, V501, G502, Y503, Q504, P505 0.886
T171 21869-22251 Sentence denotes 3 A67, I68, H69, V70, S71, G72, T73, N74, G75, T76, K77, R78, E96, K97, S98, N99, I100, R102, N122, A123, T124, N125, C136, N137, D138, P139, F140, L141, G142, Y143, H144, K145, N146, N147, K148, S149, W150, M151, E152, S153, E154, F155, L239, L240, A241, L242, H243, R244, S245, Y246, L247, T248, P249, G250, D251, S252, S253, S254, G255, W256, T257, A258, G259, A260, A261 0.869
T172 22252-22259 Sentence denotes Chain C
T173 22260-22324 Sentence denotes 1 D1137, P1138, L1139, Q1140, P1141, E1142, L1143, D1144 0.984
T174 22325-22762 Sentence denotes 2 Y705, S706, N707, N708, S709, T1074, T1075, A1076, P1077, A1078, I1079, C1080, H1081, D1082, G1083, K1084, A1085, H1086, F1087, P1088, R1089, E1090, G1091, F1093, V1094, S1095, N1096, G1097, T1098, H1099, W1100, F1101, V1102, Y1108, E1109, P1110, Q1111, I1112, I1113, T1114, T1115, D1116, N1117, T1118, F1119, V1120, S1121, G1122, N1123, C1124, D1125, V1126, V1127, I1128, G1129, I1130, V1131, N1132, N1133, T1134, V1135, Y1136 0.906
T175 22763-23371 Sentence denotes 3 N341, A342, T343, R344, F345, A346, S347, V348, Y349, A350, W351, N352, S397, F398, V399, I400, R401, E404, Q412, T413, G414, K415, I416, A417, D418, Y419, N420, Y421, K422, L423, S436, N437, N438, L439, D440, S441, K442, V443, G444, G445, N446, Y447, N448, Y449, L450, Y451, R452, L453, F454, R455, K456, S457, N458, L459, K460, P461, F462, E463, R464, D465, I466, S467, T468, E469, I470, Y471, Q472, A473, G474, S475, T476, P477, C478, N479, G480, V481, G483, F484, N485, C486, Y487, F488, P489, L490, Q491, S492, Y493, G494, F495, Q496, P497, T498, N499, G500, V501, G502, Y503, Q504, P505, R507 0.887
T176 23372-23686 Sentence denotes 4 I68, H69, V70, S71, G72, T73, N74, G75, T76, K77, R78, S98, I100, C136, D138, F140, G142, Y143, H144, K145, N146, N147, K148, S149, W150, M151, E152, S153, E154, F155, R156, N183, F184, A241, L242, H243, R244, S245, Y246, L247, T248, P249, G250, D251, S252, S253, S254, G255, W256, T257, A258, G259, A260 0.876
T177 23687-24107 Sentence denotes Fig. 2 Predicted conformational B-cell epitopes mapped on the pre-fusion structure of the modelled Indian severe acute respiratory syndrome coronavirus 2 spike protein using the pre-fusion structure of severe acute respiratory syndrome-coronavirus-2 (6VSB.PDB) (colour key: blue - epitopes 67-261; green - epitopes 341-507 based on the predicted epitopes as shown in Supplementary Table II). (A) Top view (B) Side view.
T178 24108-24343 Sentence denotes Supplementary Table III Conformational B-cell epitopes predicted by the Discotope server based on the chain A, B and C of India severe acute respiratory syndrome coronavirus 2 spike protein modelled structure (template used 6VSB.PDB).
T179 24344-24383 Sentence denotes Discotope threshold set to -3.7 cut-off
T180 24384-24967 Sentence denotes CHAIN A 71S, 72G, 73T, 74N, 75G, 76T, 148K, 149S, 150W, 151M, 152E, 178E, 179G, 180K, 181Q, 209N, 245S, 247L, 248T, 250G, 252S, 253S, 440D, 441S, 442K, 443V, 444G, 445G, 446N, 447Y, 448N, 452R, 453L, 454F, 455R, 456K, 458N, 460K, 461P, 465D, 468T, 470I, 482E, 487Y, 488F, 489P, 490L, 491Q, 492S, 493Y, 494G, 495F, 496Q, 497P, 498T, 499N, 500G, 501V, 502G, 554N, 556K, 558L, 559P, 560F, 568A, 677N, 678S, 679P, 680R, 681R, 682A, 683R, 701N, 702S, 703V, 791P, 792I, 807P, 808S, 810P, 912N, 915Y, 916E, 1069Q, 1097G, 1099H, 1116D, 1137D, 1138P, 1139L, 1140Q, 1141P, 1142E, 1143L, 1144D
T181 24968-25528 Sentence denotes CHAIN B 70V, 73T, 74N, 75G, 76T, 147N, 148K, 149S, 150W, 151M, 176D, 177L, 178E, 179G, 180K, 181Q, 182G, 183N, 212R, 244R, 245S, 246Y, 247L, 248T, 249P, 250G, 251D, 252S, 253S, 254S, 255G, 256W, 438N, 441S, 442K, 443V, 444G, 445G, 446N, 447Y, 454F, 456K, 457S, 458N, 460K, 467S, 476T, 492S, 494G, 495F, 496Q, 497P, 498T, 499N, 500G, 501V, 502G, 503Y, 554N, 556K, 558L, 559P, 676T, 677N, 678S, 679P, 680R, 701N, 702S, 703V, 714T, 791P, 792I, 807P, 808S, 810P, 912N, 915Y, 916E, 1069Q, 1109E, 1112I, 1116D, 1137D, 1138P, 1139L, 1140Q, 1141P, 1142E, 1143L, 1144D
T182 25529-26040 Sentence denotes CHAIN C 72G, 73T, 74N, 75G, 97K, 98S, 143Y, 144H, 145K, 146N, 147N, 148K, 149S, 150W, 151M, 152E, 153S, 180K, 181Q, 182G, 183N, 184F, 209N, 252S, 253S, 441S, 442K, 443V, 444G, 445G, 446N, 447Y, 454F, 456K, 457S, 458N, 460K, 480G, 492S, 494G, 496Q, 497P, 498T, 499N, 500G, 501V, 502G, 503Y, 554N, 556K, 558L, 559P, 676T, 678S, 679P, 680R, 681R, 682A, 683R, 684S, 685V, 701N, 702S, 714T, 791P, 792I, 807P, 808S, 912N, 915Y, 916E, 1069Q, 1072N, 1098T, 1112I, 1116D, 1138P, 1139L, 1140Q, 1141P, 1142E, 1143L, 1144D
T183 26041-26171 Sentence denotes Supplementary Table IV Conformational B-cell epitopes predicted using the modelled structure of the spike protein (template used:
T184 26172-26282 Sentence denotes 6ACC.PDB; 87.29% identity). (A) Ellipro server (using a protusion Index threshold of 0.9) (B) DiscoTope server
T185 26283-26285 Sentence denotes A.
T186 26286-26312 Sentence denotes Ellipro epitope prediction
T187 26313-26360 Sentence denotes Epitope number Epitope residues Epitope score
T188 26361-26391 Sentence denotes 1 244-RSYLTPGDSSSGW-256 0.95
T189 26392-26495 Sentence denotes 2 347S, 349Y, 419Y, 441-SKVGGNYNYLYRLFR-455, 457S, 465-DISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTN -499 0.943
T190 26496-26592 Sentence denotes 3 1074 TTAPAICHDGKAHFPR 1089, 1094-VSNGTHWFV-1102, 1110- PQIITTDNTFVSGNCDVVIGIVNNTV-1135 0.934
T191 26593-26622 Sentence denotes 4 144-HKNNKSWMESE-154 0.912
T192 26623-26645 Sentence denotes 5 72-GTNGTK-77 0.907
T193 26646-26648 Sentence denotes B.
T194 26649-26677 Sentence denotes DiscoTope epitope prediction
T195 26678-27306 Sentence denotes G72, T73, N74, G75, K145, N146, N147, K148, S149, L174, E178, K180, Q181, G182, 183, V211, S245, Y246, L247, T248, P249, G250, D251, S252, S253, K415, N438, S441, K442, V443, G444, G445, N446, Y447, N448, K456, S457, N458, K460, A473, G474, S475, S492, G494, Q496, P497, T498, N499, G500, V501, Y503, N554, K556, L558, P559, I567, Q675, T676, N677, S678, P679, R680, R681, A682, R683, S702, V703, A704, Y705, T714, P791, P807, S808, K809, P810, E916, Q1069, E1070 T-cell epitope prediction revealed 105 strong binding epitopes capable of binding to different HLA types using the NetCTL1.2 software based on the threshold of 0.4.
T196 27307-27437 Sentence denotes Twelve of these were shortlisted, considering a binding efficiency of >0.5 nM and capable of eliciting IFN-γ response (Table III).
T197 27438-27570 Sentence denotes Table III Spike protein peptides capable of binding to major histocompatibility complex (MHC) class I predicted using NetCTL server
T198 27571-27658 Sentence denotes Peptide Vaxijen Interferon (IFN)-γ response CTLPred Score (ANN/SVM) MHC restriction
T199 27659-27762 Sentence denotes 89-GVYFASTEK-97 0.711 Positive (1) 0.58/0.986 HLA-A*1101, HLA-A3, HLA-A*3101, HLA-A68.1, HLA-B*2705
T200 27763-27996 Sentence denotes 166-FEYVSQPFL-174 0.632 Positive (0.087) 0.65/0.184 HLA-A2, HLA-A*0201, HLA-A*0205, HLA-A2.1, HLA-B*2702, HLA-B*2705, HLA-B*3701, HLA-B40, HLA-B*4403, HLA-B*5301, HLA-B*5401, HLA-B*51, HLA-B60, HLA-B61, HLA-Cw*0301, H2-Kb, H2-Kk,
T201 27997-28163 Sentence denotes 256-WTAGAAAYY-264 0.630 Positive (0.576) 0.82/0.544 HLA-A1, HLA-B*2702, HLA-B*3501, HLA-B*4403, HLA-B*5301, HLA-B*5401, HLA-B*51, HLA-B*5801, HLA-B62, HLA-Cw*0702
T202 28164-28307 Sentence denotes 348-VYAWNRKRI-356 0.500 Positive (0.499) 0.93/0.497 HLA-A24, HLA-B*5101, HLA-B*5102, HLA-B*5103, HLA-B*51, HLA-Cw*0401, H2-Db, H2-Kd, H2-Kk
T203 28308-28567 Sentence denotes 503-YQPYRVVVL-511 0.596 Positive (0.292) 0.40/0.596 HLA-A*0201, HLA-A*0205, HLA-A24, HLA-B14, HLA-B*2702, HLA-B*2705, HLA-B*3902, HLA-B*5201, HLA-B*5301, HLA-B*5401, HLA-B*51, HLA-B60, HLA-B62, HLA-B7, HLA-B8, HLA-Cw*0401, HLA-Cw*0602, H2-Dd, H2-Kb, H2-Ld
T204 28568-28685 Sentence denotes 510-VLSFELLHA-518 1.077 Positive (0.268) 0.86/0.276 HLA-A*0201, HLA-A*0205, HLA-A3, HLA-B*5301, HLA-B*51, HLA-B62
T205 28686-28812 Sentence denotes 825-TLADAGFIK-833 0.578 Positive (0.014) 0.75/0.992 HLA-A1, HLA-A*1101, HLA-A3, HLA-A*3101, HLA-A68.1, HLA-A20, HLA-B*2705
T206 28813-29009 Sentence denotes 1058-VVFLHVTYV-1066 1.512 Positive (1) 0.77/0.779 HLA-A2, HLA-A*0201, HLA-A*0205, HLA-A68.1, HLA-A2.1, HLA-B14, HLA-B*5101, HLA-B*5102, HLA-B*5103, HLA-B*5201, HLA-B*5301, HLA-B*5401, HLA-B*51
T207 29010-29250 Sentence denotes 1210-WPWYIWLGF-1218 1.495 Positive (0.221) 0.68/0.0695 HLA-B*2702, HLA-B*2705, HLA-B*3501, HLA-B*3801, HLA-B*5101, HLA-B*5102, HLA-B*5201, HLA-B*5301, HLA-B*5401, HLA-B*51, HLA-B*5801, HLA-B62, HLA-B*0702, HLA-Cw*0401, HLA-Cw*0702.H2-Ld
T208 29251-29325 Sentence denotes Threshold of >0.7 nM was used for increased specificity of the prediction.
T209 29326-29402 Sentence denotes The peptides were reconfirmed using CTLPred server using default parameters.
T210 29403-29526 Sentence denotes The peptides that were classified as epitopes were further checked for their antigenicity score using the VaxiJen v2.0 tool
T211 29528-29538 Sentence denotes Discussion
T212 29539-29673 Sentence denotes Till February 29, 2020, three positive cases of SARS-CoV-2 were reported from India from 881 suspected cases tested at ICMR-NIV, Pune.
T213 29674-29754 Sentence denotes All the three cases had a travel history from Wuhan, China, during January 2020.
T214 29755-29909 Sentence denotes Although NGS was performed on the specimens for all the three positive cases, the complete genome sequence could be retrieved only from case 1 and case 3.
T215 29910-30079 Sentence denotes The three cases were recovered after hospitalization and were home quarantined as per the guidelines of the Ministry of Health and Family Welfare, Government of India14.
T216 30080-30256 Sentence denotes The low viral copy number of the TS specimen from case 2 could be the possible reason for lesser viral reads being retrieved during the NGS run, leading to a fragmented genome.
T217 30257-30398 Sentence denotes The recent study from China on serial samples (TSs, sputum, urine and stool) from two patients followed days 3-12 and days 4-15 post onset20.
T218 30399-30599 Sentence denotes N gene-specific real-time RT-PCR assay showed that the viral loads in TS and sputum samples peaked at around 5-6 days after symptom onset, ranging from around 104-107 copies per ml during this time20.
T219 30600-30755 Sentence denotes In another study, the virus was detected in the saliva specimens of 11 of the 12 patients, and serial saliva testing showed declines of viral RNA levels21.
T220 30756-30957 Sentence denotes The two Indian SARS-CoV-2 sequences were found to be non-identical (0.04% nt divergence), and the result of phylogenetic analysis indicated that there were two different introductions into the country.
T221 30958-31169 Sentence denotes A recent study using 52 published GenBank sequences showed evidence of substantial genetic heterogeneity and estimated the time to the most recent common ancestor to be December 5, 2019 (95% confidence interval:
T222 31170-31204 Sentence denotes November 6 - December 13, 2019)22.
T223 31205-31380 Sentence denotes Continuous monitoring and analysis of the sequences from the affected countries would be vital to understand the genetic evolution and rates of substitution of the SARS-CoV-2.
T224 31381-31572 Sentence denotes The comparison of the amino acid sequences of the non-structural (nsp1-nsp16) and structural polyproteins was undertaken with reference to the Wuhan-Hu1 strain for molecular characterization.
T225 31573-31755 Sentence denotes Some human Betacoronaviruses, including HCoV-HKU1 (lineage A), have a polybasic cleavage site as well as predicted O-linked glycans near the S1/S2 cleavage site of the spike protein.
T226 31756-31957 Sentence denotes As published recently, the polybasic cleavage site that has not been previously observed in related lineage B Betacoronaviruses and is a unique feature of SARS-CoV-2 was noted in the Indian SARS-CoV-2.
T227 31958-32102 Sentence denotes The mutation Arg408Ile in the spike protein of one of the Indian sequences is noted to be in the RBD and Ala930Val, is located in the S2 domain.
T228 32103-32171 Sentence denotes However, both are away from the ACE2 receptor-binding interface1923.
T229 32172-32349 Sentence denotes Mutations in the spike protein sequences of SARS-CoV-2 observed currently are localized over the S1 and S2 domains and, so far have not been found in the ACE2-binding interface.
T230 32350-32736 Sentence denotes From the alignment of the spike protein sequences of SARS CoV-1 and SARS-CoV-2 (Wuhan-Hu1 and India), it can be observed that the three nucleotide-deletion in the case 1 SARS-CoV-2 from India, is located close to the insert 1 region of the SARS CoV-1 (Supplementary Fig. 3 (available from http://www.ijmr.org.in/articles/2020/151/2/images/IndianJMedRes_2020_151_2_200_281471_sm11.pdf)).
T231 32737-32942 Sentence denotes Notably, case 1 and case 2 were in close contact while travelling to India, but due to the absence of the complete genome of case 2, the genetic relatedness and source of infection could not be pinpointed.
T232 32943-33052 Sentence denotes Among the SARS-CoV structural proteins, the spike protein has been found to elicit neutralizing antibodies24.
T233 33053-33216 Sentence denotes In this study, it was observed that of the five B-cell linear epitopes, which were predicted, four epitopes were present in the S1 domain and one in the S2 domain.
T234 33217-33538 Sentence denotes Prediction of conformational B-cell epitopes revealed that one of these (residue positions 341-505) in the spike protein incorporates two of the predicted linear epitopes (327-342 and 404-419) having good antigenicity along with a favourable IFN-γ response that enables differentiation and proliferation of the B-cells25.
T235 33539-33662 Sentence denotes Notably, an equivalent epitope (347-499) is predicted for the model generated using the SARS-CoV-1 S protein as a template.
T236 33663-33712 Sentence denotes In both cases, this epitope lies within the RBD6.
T237 33713-33887 Sentence denotes Although the epitope has two putative N-linked glycosylation sites within it at positions 330 and 332, the probability of these sites being actually glycosylated is very low.
T238 33888-33983 Sentence denotes A major immuno-dominant epitope has been reported from SARS-CoV between residues 441 and 70026.
T239 33984-34126 Sentence denotes Hence, the predicted B-cell conformational epitope identified in the present study may play an important role in initiating a B-cell response.
T240 34127-34262 Sentence denotes Among the five linear epitopes predicted in this study, epitopes 327-342 and 1204-1219 are conserved between SARS-CoV-2 and SARS-CoV-1.
T241 34263-34330 Sentence denotes Epitopes 243-258, 404-419 and 413-428 are found to have variations.
T242 34331-34451 Sentence denotes The spike protein of SARS-CoV has also been reported to be immunogenic and elicit high IFN-γ-specific T-cell response26.
T243 34452-34617 Sentence denotes The prediction results in this study revealed that nine possible CTL epitopes possessing good antigenicity and inducing IFN-γ response were present in the S protein.
T244 34618-34741 Sentence denotes A recent report27 also predicted T-cell epitopes in the S protein based on a similar ANN/SVM method and antigenicity score.
T245 34742-34872 Sentence denotes Although the IFN-γ response was not considered by these authors, it was noted that two of the predictions were found to be common.
T246 34873-35124 Sentence denotes Among the T-cell epitopes predicted in the present study, four epitopes 89-97 and 256-264 in the S1 domain and 825-833 and 1058-1066 in the S2 domain were found to have good CTL prediction scores with a broad HLA allele coverage of A and B supertypes.
T247 35125-35286 Sentence denotes These HLA supertypes being predominant in the Indian population, the predicted epitopes may be considered suitable for future experiments towards vaccine design.
T248 35287-35476 Sentence denotes To conclude, the prompt intervention by the Government of India and the health authorities of the State of Kerala, ensured that the said cases did not become secondary foci of transmission.
T249 35477-35700 Sentence denotes Further, the timely identification of SARS-CoV-2 in these suspected cases by the ICMR-NIV, Pune, has helped in the isolation of the patients, containment and enhanced surveillances for the virus and its restricted movement.
T250 35701-35883 Sentence denotes The availability of the genomic sequences of the identified cases will contribute to the public repositories and help towards the development of diagnostics, vaccines and antivirals.
T251 35884-36000 Sentence denotes The sequence data would also help in tracking the virus from its origin and evolution with its transmission in time.
T252 36001-36022 Sentence denotes Availability of data:
T253 36023-36124 Sentence denotes Sequences are deposited in GISAID database, with accession numbers EPI ISL 413522 and EPI ISL 413523.
T254 36126-36254 Sentence denotes Supplementary Table I Acknowledgement for the list of the sequences downloaded from GISAID database that were used in the study
T255 36255-36471 Sentence denotes Supplementary Fig. 1 Receptor-binding domain and mutations within the ‘S’ protein of the Indian severe acute respiratory syndrome coronavirus 2 mapped on the respective modelled structure (A) Side view (B) Top view.
T256 36472-36844 Sentence denotes Supplementary Fig. 2 Conformational B-cell epitopes predicted on the S protein of the Indian severe acute respiratory syndrome coronavirus (SARS-CoV-2) using the pre-fusion structure of SARS-CoV-1 (6ACC.PDB; 87.29%) (colour key: blue - epitope 1; green - epitope 2; yellow - epitope 4; pink - epitope 5 as indicated in Supplementary Table III) (A) Top view (B) Side view.
T257 36845-37077 Sentence denotes Supplementary Fig. 3 Alignment of Wuhan severe acute respiratory syndrome coronavirus 2, Indian severe acute respiratory syndrome (SARS-CoV-2) and SARS-CoV-1 (accession number: NC_004718) spike protein using CLC Genomics workbench.
T258 37078-37193 Sentence denotes Boxes represent the different insertions in the spike protein region of Indian SARS-CoV-2 (deletions in SARS-CoV-1.
T259 37194-37272 Sentence denotes S1 domain is highlighted in light red colour and the S2 domain in blue colour.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T2 800-809 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T3 12576-12581 Phenotype denotes cough http://purl.obolibrary.org/obo/HP_0012735
T4 12622-12633 Phenotype denotes sore throat http://purl.obolibrary.org/obo/HP_0033050
T5 12638-12648 Phenotype denotes mild fever http://purl.obolibrary.org/obo/HP_0011134
T6 12878-12883 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T7 12888-12897 Phenotype denotes diarrhoea http://purl.obolibrary.org/obo/HP_0002014
T8 13188-13198 Phenotype denotes runny nose http://purl.obolibrary.org/obo/HP_0031417
T9 13769-13778 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

2_test

Id Subject Object Predicate Lexical cue
32242873-29664366-47036564 6402-6404 29664366 denotes 15
32242873-31565258-47036565 6689-6691 31565258 denotes 17
32242873-27004904-47036566 6904-6907 27004904 denotes 018
32242873-27004904-47036567 7208-7210 27004904 denotes 18
32242873-27004904-47036568 7317-7319 27004904 denotes 18
32242873-32004758-47036569 14464-14465 32004758 denotes 8
32242873-31950516-47036570 30558-30561 31950516 denotes 104
32242873-31138817-47036571 32166-32170 31138817 denotes 1923
32242873-15210961-47036572 33049-33051 15210961 denotes 24
32242873-9916700-47036573 33535-33537 9916700 denotes 25
32242873-32007145-47036574 33710-33711 32007145 denotes 6
32242873-26038429-47036575 33977-33982 26038429 denotes 70026
32242873-26038429-47036576 34448-34450 26038429 denotes 26
32242873-32022276-47036577 34633-34635 32022276 denotes 27
T53539 6402-6404 29664366 denotes 15
T62421 6689-6691 31565258 denotes 17
T79581 6904-6907 27004904 denotes 018
T13164 7208-7210 27004904 denotes 18
T93390 7317-7319 27004904 denotes 18
T6574 14464-14465 32004758 denotes 8
T37244 30558-30561 31950516 denotes 104
T1135 32166-32170 31138817 denotes 1923
T80103 33049-33051 15210961 denotes 24
T68904 33535-33537 9916700 denotes 25
T89340 33710-33711 32007145 denotes 6
T29055 33977-33982 26038429 denotes 70026
T63478 34448-34450 26038429 denotes 26
T36379 34633-34635 32022276 denotes 27