PMC:7354481 / 47145-49008 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T327","span":{"begin":634,"end":641},"obj":"Body_part"},{"id":"T328","span":{"begin":825,"end":835},"obj":"Body_part"},{"id":"T329","span":{"begin":1220,"end":1226},"obj":"Body_part"},{"id":"T330","span":{"begin":1582,"end":1588},"obj":"Body_part"}],"attributes":[{"id":"A327","pred":"fma_id","subj":"T327","obj":"http://purl.org/sig/ont/fma/fma84116"},{"id":"A328","pred":"fma_id","subj":"T328","obj":"http://purl.org/sig/ont/fma/fma82740"},{"id":"A329","pred":"fma_id","subj":"T329","obj":"http://purl.org/sig/ont/fma/fma84116"},{"id":"A330","pred":"fma_id","subj":"T330","obj":"http://purl.org/sig/ont/fma/fma84116"}],"text":"By way of comparison to other human coronaviruses, multiple sequence alignment was carried out, comparing the four SARS-CoV-2 sequences with those from SARS, MERS and two cold viruses, OC43 and 229E (Table S3), [115]. The symptom spectrum for these viruses differ from that of SARS-CoV-2, therefore it is instructive to see if the miR-like sequences are present. We identified seven key miRs, which highlight considerable differences between the SARS-CoV-2 sequences, compared with the other viruses (Table S2). In each case, the four SARS-CoV-2 sequences are identical, but, for the most part, the level of conservation in the other genomes is poor. Across the four sequences, which for SARS generally show the highest degree of conservation: one ‘miR’ is completely conserved (miR-1468), while others range from two to ten nucleotide differences. Whilst it is possible that this decrease in similarity could result in reduced levels of transcriptional control, it is clear that there will be a change in the physiological effect of the virus. The proposed miR1307 has been suggested as a therapeutic target in the prevention of SARS-CoV-2 infection. Therefore, more studies on in silico patterns within the SARS-CoV-2 genome may provide a deeper understanding about miR-based novel therapeutics [117,118]. MERS shows greater divergence across these segments and the two milder symptom viruses show even greater differences or even significant sequence gaps. This divergence away from the SARS-CoV-2 sequences broadly mirrors the phylogenetic relationships obtained from the whole-genome alignments. Thus it can be argued that patterns of mutation, occurring during sequence divergence from the longer established human viruses to the more recent ones, have led to the emergence of sequence motifs that can be related directly to the pathogenicity of SARS-CoV-2."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T305","span":{"begin":115,"end":123},"obj":"Disease"},{"id":"T306","span":{"begin":152,"end":156},"obj":"Disease"},{"id":"T307","span":{"begin":277,"end":285},"obj":"Disease"},{"id":"T308","span":{"begin":446,"end":454},"obj":"Disease"},{"id":"T309","span":{"begin":535,"end":543},"obj":"Disease"},{"id":"T310","span":{"begin":688,"end":692},"obj":"Disease"},{"id":"T311","span":{"begin":1130,"end":1138},"obj":"Disease"},{"id":"T312","span":{"begin":1141,"end":1150},"obj":"Disease"},{"id":"T313","span":{"begin":1209,"end":1217},"obj":"Disease"},{"id":"T314","span":{"begin":1490,"end":1498},"obj":"Disease"},{"id":"T315","span":{"begin":1852,"end":1860},"obj":"Disease"}],"attributes":[{"id":"A305","pred":"mondo_id","subj":"T305","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A306","pred":"mondo_id","subj":"T306","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A307","pred":"mondo_id","subj":"T307","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A308","pred":"mondo_id","subj":"T308","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A309","pred":"mondo_id","subj":"T309","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A310","pred":"mondo_id","subj":"T310","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A311","pred":"mondo_id","subj":"T311","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A312","pred":"mondo_id","subj":"T312","obj":"http://purl.obolibrary.org/obo/MONDO_0005550"},{"id":"A313","pred":"mondo_id","subj":"T313","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A314","pred":"mondo_id","subj":"T314","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A315","pred":"mondo_id","subj":"T315","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"}],"text":"By way of comparison to other human coronaviruses, multiple sequence alignment was carried out, comparing the four SARS-CoV-2 sequences with those from SARS, MERS and two cold viruses, OC43 and 229E (Table S3), [115]. The symptom spectrum for these viruses differ from that of SARS-CoV-2, therefore it is instructive to see if the miR-like sequences are present. We identified seven key miRs, which highlight considerable differences between the SARS-CoV-2 sequences, compared with the other viruses (Table S2). In each case, the four SARS-CoV-2 sequences are identical, but, for the most part, the level of conservation in the other genomes is poor. Across the four sequences, which for SARS generally show the highest degree of conservation: one ‘miR’ is completely conserved (miR-1468), while others range from two to ten nucleotide differences. Whilst it is possible that this decrease in similarity could result in reduced levels of transcriptional control, it is clear that there will be a change in the physiological effect of the virus. The proposed miR1307 has been suggested as a therapeutic target in the prevention of SARS-CoV-2 infection. Therefore, more studies on in silico patterns within the SARS-CoV-2 genome may provide a deeper understanding about miR-based novel therapeutics [117,118]. MERS shows greater divergence across these segments and the two milder symptom viruses show even greater differences or even significant sequence gaps. This divergence away from the SARS-CoV-2 sequences broadly mirrors the phylogenetic relationships obtained from the whole-genome alignments. Thus it can be argued that patterns of mutation, occurring during sequence divergence from the longer established human viruses to the more recent ones, have led to the emergence of sequence motifs that can be related directly to the pathogenicity of SARS-CoV-2."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T545","span":{"begin":30,"end":35},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"},{"id":"T546","span":{"begin":176,"end":183},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T547","span":{"begin":249,"end":256},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T548","span":{"begin":492,"end":499},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T549","span":{"begin":507,"end":509},"obj":"http://purl.obolibrary.org/obo/CLO_0008922"},{"id":"T550","span":{"begin":507,"end":509},"obj":"http://purl.obolibrary.org/obo/CLO_0050052"},{"id":"T551","span":{"begin":821,"end":824},"obj":"http://purl.obolibrary.org/obo/CLO_0050884"},{"id":"T552","span":{"begin":994,"end":995},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T553","span":{"begin":1038,"end":1043},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T554","span":{"begin":1066,"end":1069},"obj":"http://purl.obolibrary.org/obo/CLO_0051582"},{"id":"T555","span":{"begin":1088,"end":1089},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T556","span":{"begin":1239,"end":1240},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T557","span":{"begin":1387,"end":1394},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T558","span":{"begin":1715,"end":1720},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"},{"id":"T559","span":{"begin":1721,"end":1728},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"}],"text":"By way of comparison to other human coronaviruses, multiple sequence alignment was carried out, comparing the four SARS-CoV-2 sequences with those from SARS, MERS and two cold viruses, OC43 and 229E (Table S3), [115]. The symptom spectrum for these viruses differ from that of SARS-CoV-2, therefore it is instructive to see if the miR-like sequences are present. We identified seven key miRs, which highlight considerable differences between the SARS-CoV-2 sequences, compared with the other viruses (Table S2). In each case, the four SARS-CoV-2 sequences are identical, but, for the most part, the level of conservation in the other genomes is poor. Across the four sequences, which for SARS generally show the highest degree of conservation: one ‘miR’ is completely conserved (miR-1468), while others range from two to ten nucleotide differences. Whilst it is possible that this decrease in similarity could result in reduced levels of transcriptional control, it is clear that there will be a change in the physiological effect of the virus. The proposed miR1307 has been suggested as a therapeutic target in the prevention of SARS-CoV-2 infection. Therefore, more studies on in silico patterns within the SARS-CoV-2 genome may provide a deeper understanding about miR-based novel therapeutics [117,118]. MERS shows greater divergence across these segments and the two milder symptom viruses show even greater differences or even significant sequence gaps. This divergence away from the SARS-CoV-2 sequences broadly mirrors the phylogenetic relationships obtained from the whole-genome alignments. Thus it can be argued that patterns of mutation, occurring during sequence divergence from the longer established human viruses to the more recent ones, have led to the emergence of sequence motifs that can be related directly to the pathogenicity of SARS-CoV-2."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T188","span":{"begin":206,"end":208},"obj":"Chemical"},{"id":"T189","span":{"begin":507,"end":509},"obj":"Chemical"},{"id":"T190","span":{"begin":825,"end":835},"obj":"Chemical"}],"attributes":[{"id":"A188","pred":"chebi_id","subj":"T188","obj":"http://purl.obolibrary.org/obo/CHEBI_29388"},{"id":"A189","pred":"chebi_id","subj":"T189","obj":"http://purl.obolibrary.org/obo/CHEBI_29387"},{"id":"A190","pred":"chebi_id","subj":"T190","obj":"http://purl.obolibrary.org/obo/CHEBI_36976"}],"text":"By way of comparison to other human coronaviruses, multiple sequence alignment was carried out, comparing the four SARS-CoV-2 sequences with those from SARS, MERS and two cold viruses, OC43 and 229E (Table S3), [115]. The symptom spectrum for these viruses differ from that of SARS-CoV-2, therefore it is instructive to see if the miR-like sequences are present. We identified seven key miRs, which highlight considerable differences between the SARS-CoV-2 sequences, compared with the other viruses (Table S2). In each case, the four SARS-CoV-2 sequences are identical, but, for the most part, the level of conservation in the other genomes is poor. Across the four sequences, which for SARS generally show the highest degree of conservation: one ‘miR’ is completely conserved (miR-1468), while others range from two to ten nucleotide differences. Whilst it is possible that this decrease in similarity could result in reduced levels of transcriptional control, it is clear that there will be a change in the physiological effect of the virus. The proposed miR1307 has been suggested as a therapeutic target in the prevention of SARS-CoV-2 infection. Therefore, more studies on in silico patterns within the SARS-CoV-2 genome may provide a deeper understanding about miR-based novel therapeutics [117,118]. MERS shows greater divergence across these segments and the two milder symptom viruses show even greater differences or even significant sequence gaps. This divergence away from the SARS-CoV-2 sequences broadly mirrors the phylogenetic relationships obtained from the whole-genome alignments. Thus it can be argued that patterns of mutation, occurring during sequence divergence from the longer established human viruses to the more recent ones, have led to the emergence of sequence motifs that can be related directly to the pathogenicity of SARS-CoV-2."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T209","span":{"begin":938,"end":961},"obj":"http://purl.obolibrary.org/obo/GO_0006355"}],"text":"By way of comparison to other human coronaviruses, multiple sequence alignment was carried out, comparing the four SARS-CoV-2 sequences with those from SARS, MERS and two cold viruses, OC43 and 229E (Table S3), [115]. The symptom spectrum for these viruses differ from that of SARS-CoV-2, therefore it is instructive to see if the miR-like sequences are present. We identified seven key miRs, which highlight considerable differences between the SARS-CoV-2 sequences, compared with the other viruses (Table S2). In each case, the four SARS-CoV-2 sequences are identical, but, for the most part, the level of conservation in the other genomes is poor. Across the four sequences, which for SARS generally show the highest degree of conservation: one ‘miR’ is completely conserved (miR-1468), while others range from two to ten nucleotide differences. Whilst it is possible that this decrease in similarity could result in reduced levels of transcriptional control, it is clear that there will be a change in the physiological effect of the virus. The proposed miR1307 has been suggested as a therapeutic target in the prevention of SARS-CoV-2 infection. Therefore, more studies on in silico patterns within the SARS-CoV-2 genome may provide a deeper understanding about miR-based novel therapeutics [117,118]. MERS shows greater divergence across these segments and the two milder symptom viruses show even greater differences or even significant sequence gaps. This divergence away from the SARS-CoV-2 sequences broadly mirrors the phylogenetic relationships obtained from the whole-genome alignments. Thus it can be argued that patterns of mutation, occurring during sequence divergence from the longer established human viruses to the more recent ones, have led to the emergence of sequence motifs that can be related directly to the pathogenicity of SARS-CoV-2."}

{"project":"LitCovid-sentences","denotations":[{"id":"T302","span":{"begin":0,"end":217},"obj":"Sentence"},{"id":"T303","span":{"begin":218,"end":362},"obj":"Sentence"},{"id":"T304","span":{"begin":363,"end":511},"obj":"Sentence"},{"id":"T305","span":{"begin":512,"end":650},"obj":"Sentence"},{"id":"T306","span":{"begin":651,"end":848},"obj":"Sentence"},{"id":"T307","span":{"begin":849,"end":1044},"obj":"Sentence"},{"id":"T308","span":{"begin":1045,"end":1151},"obj":"Sentence"},{"id":"T309","span":{"begin":1152,"end":1307},"obj":"Sentence"},{"id":"T310","span":{"begin":1308,"end":1459},"obj":"Sentence"},{"id":"T311","span":{"begin":1460,"end":1600},"obj":"Sentence"},{"id":"T312","span":{"begin":1601,"end":1863},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"By way of comparison to other human coronaviruses, multiple sequence alignment was carried out, comparing the four SARS-CoV-2 sequences with those from SARS, MERS and two cold viruses, OC43 and 229E (Table S3), [115]. The symptom spectrum for these viruses differ from that of SARS-CoV-2, therefore it is instructive to see if the miR-like sequences are present. We identified seven key miRs, which highlight considerable differences between the SARS-CoV-2 sequences, compared with the other viruses (Table S2). In each case, the four SARS-CoV-2 sequences are identical, but, for the most part, the level of conservation in the other genomes is poor. Across the four sequences, which for SARS generally show the highest degree of conservation: one ‘miR’ is completely conserved (miR-1468), while others range from two to ten nucleotide differences. Whilst it is possible that this decrease in similarity could result in reduced levels of transcriptional control, it is clear that there will be a change in the physiological effect of the virus. The proposed miR1307 has been suggested as a therapeutic target in the prevention of SARS-CoV-2 infection. Therefore, more studies on in silico patterns within the SARS-CoV-2 genome may provide a deeper understanding about miR-based novel therapeutics [117,118]. MERS shows greater divergence across these segments and the two milder symptom viruses show even greater differences or even significant sequence gaps. This divergence away from the SARS-CoV-2 sequences broadly mirrors the phylogenetic relationships obtained from the whole-genome alignments. Thus it can be argued that patterns of mutation, occurring during sequence divergence from the longer established human viruses to the more recent ones, have led to the emergence of sequence motifs that can be related directly to the pathogenicity of SARS-CoV-2."}

{"project":"2_test","denotations":[{"id":"32512929-24170397-144200800","span":{"begin":212,"end":215},"obj":"24170397"}],"text":"By way of comparison to other human coronaviruses, multiple sequence alignment was carried out, comparing the four SARS-CoV-2 sequences with those from SARS, MERS and two cold viruses, OC43 and 229E (Table S3), [115]. The symptom spectrum for these viruses differ from that of SARS-CoV-2, therefore it is instructive to see if the miR-like sequences are present. We identified seven key miRs, which highlight considerable differences between the SARS-CoV-2 sequences, compared with the other viruses (Table S2). In each case, the four SARS-CoV-2 sequences are identical, but, for the most part, the level of conservation in the other genomes is poor. Across the four sequences, which for SARS generally show the highest degree of conservation: one ‘miR’ is completely conserved (miR-1468), while others range from two to ten nucleotide differences. Whilst it is possible that this decrease in similarity could result in reduced levels of transcriptional control, it is clear that there will be a change in the physiological effect of the virus. The proposed miR1307 has been suggested as a therapeutic target in the prevention of SARS-CoV-2 infection. Therefore, more studies on in silico patterns within the SARS-CoV-2 genome may provide a deeper understanding about miR-based novel therapeutics [117,118]. MERS shows greater divergence across these segments and the two milder symptom viruses show even greater differences or even significant sequence gaps. This divergence away from the SARS-CoV-2 sequences broadly mirrors the phylogenetic relationships obtained from the whole-genome alignments. Thus it can be argued that patterns of mutation, occurring during sequence divergence from the longer established human viruses to the more recent ones, have led to the emergence of sequence motifs that can be related directly to the pathogenicity of SARS-CoV-2."}

{"project":"LitCovid-PubTator","denotations":[{"id":"1179","span":{"begin":779,"end":787},"obj":"Gene"},{"id":"1180","span":{"begin":1058,"end":1065},"obj":"Gene"},{"id":"1181","span":{"begin":30,"end":35},"obj":"Species"},{"id":"1182","span":{"begin":36,"end":49},"obj":"Species"},{"id":"1183","span":{"begin":115,"end":125},"obj":"Species"},{"id":"1184","span":{"begin":277,"end":287},"obj":"Species"},{"id":"1185","span":{"begin":446,"end":456},"obj":"Species"},{"id":"1186","span":{"begin":535,"end":545},"obj":"Species"},{"id":"1187","span":{"begin":1209,"end":1219},"obj":"Species"},{"id":"1188","span":{"begin":1490,"end":1500},"obj":"Species"},{"id":"1189","span":{"begin":1715,"end":1720},"obj":"Species"},{"id":"1190","span":{"begin":1852,"end":1862},"obj":"Species"},{"id":"1191","span":{"begin":185,"end":189},"obj":"Species"},{"id":"1192","span":{"begin":194,"end":198},"obj":"Species"},{"id":"1193","span":{"begin":158,"end":162},"obj":"Disease"},{"id":"1194","span":{"begin":1130,"end":1150},"obj":"Disease"},{"id":"1195","span":{"begin":1308,"end":1312},"obj":"Disease"}],"attributes":[{"id":"A1179","pred":"tao:has_database_id","subj":"1179","obj":"Gene:100302115"},{"id":"A1180","pred":"tao:has_database_id","subj":"1180","obj":"Gene:100302174"},{"id":"A1181","pred":"tao:has_database_id","subj":"1181","obj":"Tax:9606"},{"id":"A1182","pred":"tao:has_database_id","subj":"1182","obj":"Tax:11118"},{"id":"A1183","pred":"tao:has_database_id","subj":"1183","obj":"Tax:2697049"},{"id":"A1184","pred":"tao:has_database_id","subj":"1184","obj":"Tax:2697049"},{"id":"A1185","pred":"tao:has_database_id","subj":"1185","obj":"Tax:2697049"},{"id":"A1186","pred":"tao:has_database_id","subj":"1186","obj":"Tax:2697049"},{"id":"A1187","pred":"tao:has_database_id","subj":"1187","obj":"Tax:2697049"},{"id":"A1188","pred":"tao:has_database_id","subj":"1188","obj":"Tax:2697049"},{"id":"A1189","pred":"tao:has_database_id","subj":"1189","obj":"Tax:9606"},{"id":"A1190","pred":"tao:has_database_id","subj":"1190","obj":"Tax:2697049"},{"id":"A1191","pred":"tao:has_database_id","subj":"1191","obj":"Tax:31631"},{"id":"A1192","pred":"tao:has_database_id","subj":"1192","obj":"Tax:11137"},{"id":"A1193","pred":"tao:has_database_id","subj":"1193","obj":"MESH:D018352"},{"id":"A1194","pred":"tao:has_database_id","subj":"1194","obj":"MESH:C000657245"},{"id":"A1195","pred":"tao:has_database_id","subj":"1195","obj":"MESH:D018352"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}],"text":"By way of comparison to other human coronaviruses, multiple sequence alignment was carried out, comparing the four SARS-CoV-2 sequences with those from SARS, MERS and two cold viruses, OC43 and 229E (Table S3), [115]. The symptom spectrum for these viruses differ from that of SARS-CoV-2, therefore it is instructive to see if the miR-like sequences are present. We identified seven key miRs, which highlight considerable differences between the SARS-CoV-2 sequences, compared with the other viruses (Table S2). In each case, the four SARS-CoV-2 sequences are identical, but, for the most part, the level of conservation in the other genomes is poor. Across the four sequences, which for SARS generally show the highest degree of conservation: one ‘miR’ is completely conserved (miR-1468), while others range from two to ten nucleotide differences. Whilst it is possible that this decrease in similarity could result in reduced levels of transcriptional control, it is clear that there will be a change in the physiological effect of the virus. The proposed miR1307 has been suggested as a therapeutic target in the prevention of SARS-CoV-2 infection. Therefore, more studies on in silico patterns within the SARS-CoV-2 genome may provide a deeper understanding about miR-based novel therapeutics [117,118]. MERS shows greater divergence across these segments and the two milder symptom viruses show even greater differences or even significant sequence gaps. This divergence away from the SARS-CoV-2 sequences broadly mirrors the phylogenetic relationships obtained from the whole-genome alignments. Thus it can be argued that patterns of mutation, occurring during sequence divergence from the longer established human viruses to the more recent ones, have led to the emergence of sequence motifs that can be related directly to the pathogenicity of SARS-CoV-2."}