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PMC:7029759 / 9636-11523 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
220 31-40 Species denotes 2019-nCoV Tax:2697049
221 6-22 Chemical denotes oligonucleotides MESH:D009841
236 93-102 Species denotes 2019-nCoV Tax:2697049
237 193-202 Species denotes 2019-nCoV Tax:2697049
238 522-530 Species denotes CoV-2019 Tax:2697049
239 721-730 Species denotes 2019-nCoV Tax:2697049
240 738-748 Species denotes SARS virus Tax:694009
241 1477-1482 Species denotes Ebola Tax:1570291
242 354-370 Chemical denotes oligonucleotides MESH:D009841
243 658-673 Chemical denotes oligonucleotide MESH:D009841
244 853-869 Chemical denotes oligonucleotides MESH:D009841
245 960-965 Chemical denotes lipid MESH:D008055
246 1141-1150 Disease denotes infection MESH:D007239
247 1396-1411 Disease denotes viral infection MESH:D001102
248 1713-1721 Disease denotes infected MESH:D007239
249 236-246 CellLine denotes MN908947.3 CVCL:U508

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T184 31-40 SP_7 denotes 2019-nCoV
T183 45-51 SO:0001026 denotes genome
T182 73-80 GO:0009986 denotes surface
T181 93-102 SP_7 denotes 2019-nCoV
T180 134-140 SO:0001026 denotes genome
T179 174-180 SO:0001026 denotes genome
T178 193-202 SP_7 denotes 2019-nCoV
T177 311-332 SO:0000646 denotes small interfering RNA
T176 334-339 SO:0000646 denotes siRNA
T175 344-353 SO:0000077 denotes antisense
T174 391-396 NCBITaxon:10239 denotes virus
T173 418-424 SO:0001026 denotes genome
T172 511-518 SO:0000417 denotes domains
T171 612-617 SO:0000646 denotes siRNA
T170 638-643 NCBITaxon:10239 denotes viral
T169 702-708 SO:0001026 denotes genome
T168 709-717 SO:0000853 denotes homology
T167 721-730 SP_7 denotes 2019-nCoV
T166 738-748 NCBITaxon:10633 denotes SARS virus
T165 898-903 UBERON:0000170 denotes lungs
T164 960-965 CHEBI:18059;CHEBI:18059 denotes lipid
T163 1020-1025 UBERON:0000170 denotes lungs
T162 1064-1069 SO:0000646 denotes siRNA
T161 1123-1128 UBERON:0000170 denotes lungs
T160 1219-1227 UBERON:0004821;CL:0000322 denotes alveolar
T159 1228-1238 CL:0000322;UBERON:0004821 denotes epithelial
T158 1239-1244 CL:0000322 denotes cells
T157 1252-1256 UBERON:0002048 denotes lung
T156 1261-1266 SO:0000646 denotes siRNA
T155 1340-1344 SO:0000704 denotes gene
T154 1396-1401 NCBITaxon:10239 denotes viral
T153 1452-1457 SO:0000646 denotes siRNA
T152 1547-1553 NCBITaxon:33208 denotes animal
T151 1602-1607 SO:0000646 denotes siRNA
T150 1690-1695 SO:0000646 denotes siRNA
T149 1696-1701 CHEBI:23888;CHEBI:23888 denotes drugs
T148 1742-1747 SO:0000646 denotes siRNA
T147 1867-1878 CHEBI:23888;CHEBI:23888 denotes medications

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T39 41-44 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T40 45-51 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T41 81-89 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T42 130-133 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T43 134-140 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T44 170-173 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T45 174-180 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T46 329-332 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T47 414-417 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T48 418-424 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T49 498-501 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T50 702-708 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T51 898-903 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T52 960-965 Body_part denotes lipid http://purl.org/sig/ont/fma/fma67264
T53 1020-1025 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T54 1123-1128 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T55 1219-1244 Body_part denotes alveolar epithelial cells http://purl.org/sig/ont/fma/fma62499
T56 1239-1244 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T57 1252-1256 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T58 1340-1344 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T4 1252-1256 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T5 1664-1669 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T25 738-742 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T26 1141-1150 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T27 1396-1411 Disease denotes viral infection http://purl.obolibrary.org/obo/MONDO_0005108
T28 1402-1411 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T29 1477-1482 Disease denotes Ebola http://purl.obolibrary.org/obo/MONDO_0005737

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T86 391-396 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T87 743-748 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T88 823-824 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T89 898-903 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T90 1020-1025 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T91 1123-1128 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T92 1159-1160 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T93 1228-1256 http://purl.obolibrary.org/obo/CL_0000082 denotes epithelial cells in the lung
T94 1308-1309 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T95 1340-1344 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T96 1394-1395 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T97 1547-1553 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T98 1565-1567 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T99 1643-1644 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T100 1705-1706 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T23 6-22 Chemical denotes oligonucleotides http://purl.obolibrary.org/obo/CHEBI_7754
T24 81-89 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T25 354-370 Chemical denotes oligonucleotides http://purl.obolibrary.org/obo/CHEBI_7754
T26 658-673 Chemical denotes oligonucleotide http://purl.obolibrary.org/obo/CHEBI_7754
T27 853-869 Chemical denotes oligonucleotides http://purl.obolibrary.org/obo/CHEBI_7754
T28 960-965 Chemical denotes lipid http://purl.obolibrary.org/obo/CHEBI_18059
T29 966-979 Chemical denotes nanoparticles http://purl.obolibrary.org/obo/CHEBI_50803
T30 1696-1701 Chemical denotes drugs http://purl.obolibrary.org/obo/CHEBI_23888

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T4 152-163 http://purl.obolibrary.org/obo/GO_0009056 denotes degradation
T5 1396-1411 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infection

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T58 0-51 Sentence denotes Using oligonucleotides against 2019-nCoV RNA genome
T59 52-164 Sentence denotes Beyond targeting the surface proteins of 2019-nCoV, one could also target the RNA genome itself for degradation.
T60 165-428 Sentence denotes This RNA genome sequence of 2019-nCoV was recently published (GenBank: MN908947.3), and one strategy that could be considered then, is the use of small interfering RNA (siRNA) or antisense oligonucleotides (ASO) to combat the virus by targeting its RNA genome 23.
T61 429-476 Sentence denotes The challenge with this strategy is multi-fold.
T62 477-545 Sentence denotes First, the conserved RNA sequence domains of CoV-2019 are not known.
T63 546-683 Sentence denotes Identifying conserved sequences is essential in order to optimize siRNA targeting and avoid viral escape of the oligonucleotide strategy.
T64 684-822 Sentence denotes One could look at genome homology of 2019-nCoV to the SARS virus for comparison of conserved sequences, but this would still be guesswork.
T65 823-904 Sentence denotes A second challenge is how the oligonucleotides would be delivered into the lungs.
T66 905-1029 Sentence denotes Advances have been made into delivery vehicles such as lipid nanoparticles that can mediate some delivery into the lungs 24.
T67 1030-1195 Sentence denotes It is unknown, however, if enough siRNA’s or ASO’s would be effectively delivered within the lungs to stop the infection or make a difference in its clinical course.
T68 1196-1412 Sentence denotes For example, if 25% of alveolar epithelial cells in the lung had siRNA or ASO in them, that efficiency might be a great success for traditional gene therapy, but would hardly make any difference in a viral infection.
T69 1413-1568 Sentence denotes Such an explanation is also likely why siRNA candidates against Ebola failed in trials 25, despite significant success in preclinical animal models 26, 27.
T70 1569-1733 Sentence denotes Lastly, even if one assumed that siRNA was effective clinically, there is a limited ability to scale up manufacturing of siRNA drugs to a large infected population.
T71 1734-1887 Sentence denotes Current siRNA and ASO therapies are manufactured for rare diseases, and there are no available resources existing to manufacture the medications quickly.