PMC:7111504 / 10225-10820 JSONTXT

{"project":"LitCovid-PubTator","denotations":[{"id":"145","span":{"begin":503,"end":508},"obj":"Gene"},{"id":"146","span":{"begin":516,"end":521},"obj":"Gene"},{"id":"147","span":{"begin":529,"end":534},"obj":"Gene"},{"id":"148","span":{"begin":542,"end":547},"obj":"Gene"},{"id":"149","span":{"begin":558,"end":563},"obj":"Gene"},{"id":"150","span":{"begin":325,"end":328},"obj":"Gene"},{"id":"151","span":{"begin":106,"end":115},"obj":"Species"},{"id":"152","span":{"begin":158,"end":167},"obj":"Species"},{"id":"153","span":{"begin":367,"end":376},"obj":"Chemical"}],"attributes":[{"id":"A145","pred":"tao:has_database_id","subj":"145","obj":"Gene:3105"},{"id":"A146","pred":"tao:has_database_id","subj":"146","obj":"Gene:3105"},{"id":"A147","pred":"tao:has_database_id","subj":"147","obj":"Gene:3106"},{"id":"A148","pred":"tao:has_database_id","subj":"148","obj":"Gene:3106"},{"id":"A149","pred":"tao:has_database_id","subj":"149","obj":"Gene:3107"},{"id":"A150","pred":"tao:has_database_id","subj":"150","obj":"Gene:3107"},{"id":"A151","pred":"tao:has_database_id","subj":"151","obj":"Tax:2697049"},{"id":"A152","pred":"tao:has_database_id","subj":"152","obj":"Tax:2697049"}],"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":"As a complementary reciprocal approach, we conducted a de novo search of immunogenic peptides against the 2019-nCov proteome sequence. We scanned 9-mers from 2019-nCoV proteome with a window of 9 amino acids and step length of 1 amino acid (9613 in total). The immunogenicity of 9-mer peptides were predicted using iPred and MHC presentation scores were gauged using NetMHCpan 4.0 6 for various HLA types. In this task, we focused on haplotypes common in Chinese and European populations, which include HLA-A*02:01, HLA-A*01:01, HLA-B*07:02, HLA-B*40:01 and HLA-C*07:02 alleles (Data Table 3 4)."}

{"project":"LitCovid-PMC-OGER-BB","denotations":[{"id":"T113","span":{"begin":73,"end":84},"obj":"CHEBI:60816;CHEBI:60816"},{"id":"T114","span":{"begin":106,"end":115},"obj":"SP_7"},{"id":"T115","span":{"begin":148,"end":152},"obj":"SP_9"},{"id":"T116","span":{"begin":158,"end":167},"obj":"SP_7"},{"id":"T117","span":{"begin":261,"end":275},"obj":"BV_15"},{"id":"T118","span":{"begin":325,"end":328},"obj":"GO:0042611"},{"id":"T119","span":{"begin":434,"end":444},"obj":"SO:0001024"},{"id":"T120","span":{"begin":503,"end":508},"obj":"PR:000002009"},{"id":"T121","span":{"begin":516,"end":521},"obj":"PR:000002009"},{"id":"T122","span":{"begin":529,"end":534},"obj":"PR:000002010"},{"id":"T123","span":{"begin":542,"end":547},"obj":"PR:000002010"},{"id":"T124","span":{"begin":558,"end":563},"obj":"PR:000002011"},{"id":"T125","span":{"begin":570,"end":577},"obj":"SO:0001023"},{"id":"T4279","span":{"begin":73,"end":84},"obj":"CHEBI:60816;CHEBI:60816"},{"id":"T6626","span":{"begin":106,"end":115},"obj":"SP_7"},{"id":"T90148","span":{"begin":148,"end":152},"obj":"SP_9"},{"id":"T85766","span":{"begin":158,"end":167},"obj":"SP_7"},{"id":"T90107","span":{"begin":261,"end":275},"obj":"BV_15"},{"id":"T45797","span":{"begin":325,"end":328},"obj":"GO:0042611"},{"id":"T63293","span":{"begin":434,"end":444},"obj":"SO:0001024"},{"id":"T59388","span":{"begin":503,"end":508},"obj":"PR:000002009"},{"id":"T64753","span":{"begin":516,"end":521},"obj":"PR:000002009"},{"id":"T67356","span":{"begin":529,"end":534},"obj":"PR:000002010"},{"id":"T99742","span":{"begin":542,"end":547},"obj":"PR:000002010"},{"id":"T8696","span":{"begin":558,"end":563},"obj":"PR:000002011"},{"id":"T3771","span":{"begin":570,"end":577},"obj":"SO:0001023"}],"text":"As a complementary reciprocal approach, we conducted a de novo search of immunogenic peptides against the 2019-nCov proteome sequence. We scanned 9-mers from 2019-nCoV proteome with a window of 9 amino acids and step length of 1 amino acid (9613 in total). The immunogenicity of 9-mer peptides were predicted using iPred and MHC presentation scores were gauged using NetMHCpan 4.0 6 for various HLA types. In this task, we focused on haplotypes common in Chinese and European populations, which include HLA-A*02:01, HLA-A*01:01, HLA-B*07:02, HLA-B*40:01 and HLA-C*07:02 alleles (Data Table 3 4)."}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T55","span":{"begin":196,"end":207},"obj":"Body_part"},{"id":"T56","span":{"begin":229,"end":239},"obj":"Body_part"},{"id":"T57","span":{"begin":325,"end":328},"obj":"Body_part"},{"id":"T58","span":{"begin":395,"end":398},"obj":"Body_part"},{"id":"T59","span":{"begin":503,"end":506},"obj":"Body_part"},{"id":"T60","span":{"begin":516,"end":519},"obj":"Body_part"},{"id":"T61","span":{"begin":529,"end":532},"obj":"Body_part"},{"id":"T62","span":{"begin":542,"end":545},"obj":"Body_part"},{"id":"T63","span":{"begin":558,"end":561},"obj":"Body_part"}],"attributes":[{"id":"A55","pred":"fma_id","subj":"T55","obj":"http://purl.org/sig/ont/fma/fma82739"},{"id":"A56","pred":"fma_id","subj":"T56","obj":"http://purl.org/sig/ont/fma/fma82739"},{"id":"A57","pred":"fma_id","subj":"T57","obj":"http://purl.org/sig/ont/fma/fma84079"},{"id":"A58","pred":"fma_id","subj":"T58","obj":"http://purl.org/sig/ont/fma/fma84795"},{"id":"A59","pred":"fma_id","subj":"T59","obj":"http://purl.org/sig/ont/fma/fma84795"},{"id":"A60","pred":"fma_id","subj":"T60","obj":"http://purl.org/sig/ont/fma/fma84795"},{"id":"A61","pred":"fma_id","subj":"T61","obj":"http://purl.org/sig/ont/fma/fma84795"},{"id":"A62","pred":"fma_id","subj":"T62","obj":"http://purl.org/sig/ont/fma/fma84795"},{"id":"A63","pred":"fma_id","subj":"T63","obj":"http://purl.org/sig/ont/fma/fma84795"}],"text":"As a complementary reciprocal approach, we conducted a de novo search of immunogenic peptides against the 2019-nCov proteome sequence. We scanned 9-mers from 2019-nCoV proteome with a window of 9 amino acids and step length of 1 amino acid (9613 in total). The immunogenicity of 9-mer peptides were predicted using iPred and MHC presentation scores were gauged using NetMHCpan 4.0 6 for various HLA types. In this task, we focused on haplotypes common in Chinese and European populations, which include HLA-A*02:01, HLA-A*01:01, HLA-B*07:02, HLA-B*40:01 and HLA-C*07:02 alleles (Data Table 3 4)."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T138","span":{"begin":3,"end":4},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T139","span":{"begin":53,"end":54},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T140","span":{"begin":85,"end":93},"obj":"http://purl.obolibrary.org/obo/PR_000018263"},{"id":"T141","span":{"begin":182,"end":183},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T142","span":{"begin":285,"end":293},"obj":"http://purl.obolibrary.org/obo/PR_000018263"},{"id":"T143","span":{"begin":423,"end":430},"obj":"http://purl.obolibrary.org/obo/CLO_0009985"},{"id":"T144","span":{"begin":507,"end":508},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T145","span":{"begin":520,"end":521},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T146","span":{"begin":533,"end":534},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"},{"id":"T147","span":{"begin":546,"end":547},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"},{"id":"T148","span":{"begin":590,"end":593},"obj":"http://purl.obolibrary.org/obo/CLO_0001302"}],"text":"As a complementary reciprocal approach, we conducted a de novo search of immunogenic peptides against the 2019-nCov proteome sequence. We scanned 9-mers from 2019-nCoV proteome with a window of 9 amino acids and step length of 1 amino acid (9613 in total). The immunogenicity of 9-mer peptides were predicted using iPred and MHC presentation scores were gauged using NetMHCpan 4.0 6 for various HLA types. In this task, we focused on haplotypes common in Chinese and European populations, which include HLA-A*02:01, HLA-A*01:01, HLA-B*07:02, HLA-B*40:01 and HLA-C*07:02 alleles (Data Table 3 4)."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T75","span":{"begin":85,"end":93},"obj":"Chemical"},{"id":"T76","span":{"begin":196,"end":207},"obj":"Chemical"},{"id":"T77","span":{"begin":196,"end":201},"obj":"Chemical"},{"id":"T78","span":{"begin":202,"end":207},"obj":"Chemical"},{"id":"T79","span":{"begin":229,"end":239},"obj":"Chemical"},{"id":"T80","span":{"begin":229,"end":234},"obj":"Chemical"},{"id":"T81","span":{"begin":235,"end":239},"obj":"Chemical"},{"id":"T82","span":{"begin":285,"end":293},"obj":"Chemical"}],"attributes":[{"id":"A75","pred":"chebi_id","subj":"T75","obj":"http://purl.obolibrary.org/obo/CHEBI_16670"},{"id":"A76","pred":"chebi_id","subj":"T76","obj":"http://purl.obolibrary.org/obo/CHEBI_33709"},{"id":"A77","pred":"chebi_id","subj":"T77","obj":"http://purl.obolibrary.org/obo/CHEBI_46882"},{"id":"A78","pred":"chebi_id","subj":"T78","obj":"http://purl.obolibrary.org/obo/CHEBI_37527"},{"id":"A79","pred":"chebi_id","subj":"T79","obj":"http://purl.obolibrary.org/obo/CHEBI_33709"},{"id":"A80","pred":"chebi_id","subj":"T80","obj":"http://purl.obolibrary.org/obo/CHEBI_46882"},{"id":"A81","pred":"chebi_id","subj":"T81","obj":"http://purl.obolibrary.org/obo/CHEBI_37527"},{"id":"A82","pred":"chebi_id","subj":"T82","obj":"http://purl.obolibrary.org/obo/CHEBI_16670"}],"text":"As a complementary reciprocal approach, we conducted a de novo search of immunogenic peptides against the 2019-nCov proteome sequence. We scanned 9-mers from 2019-nCoV proteome with a window of 9 amino acids and step length of 1 amino acid (9613 in total). The immunogenicity of 9-mer peptides were predicted using iPred and MHC presentation scores were gauged using NetMHCpan 4.0 6 for various HLA types. In this task, we focused on haplotypes common in Chinese and European populations, which include HLA-A*02:01, HLA-A*01:01, HLA-B*07:02, HLA-B*40:01 and HLA-C*07:02 alleles (Data Table 3 4)."}

{"project":"LitCovid-sentences","denotations":[{"id":"T116","span":{"begin":0,"end":134},"obj":"Sentence"},{"id":"T117","span":{"begin":135,"end":256},"obj":"Sentence"},{"id":"T118","span":{"begin":257,"end":405},"obj":"Sentence"},{"id":"T119","span":{"begin":406,"end":595},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"As a complementary reciprocal approach, we conducted a de novo search of immunogenic peptides against the 2019-nCov proteome sequence. We scanned 9-mers from 2019-nCoV proteome with a window of 9 amino acids and step length of 1 amino acid (9613 in total). The immunogenicity of 9-mer peptides were predicted using iPred and MHC presentation scores were gauged using NetMHCpan 4.0 6 for various HLA types. In this task, we focused on haplotypes common in Chinese and European populations, which include HLA-A*02:01, HLA-A*01:01, HLA-B*07:02, HLA-B*40:01 and HLA-C*07:02 alleles (Data Table 3 4)."}

{"project":"MyTest","denotations":[{"id":"32269766-28978689-30420972","span":{"begin":381,"end":383},"obj":"28978689"}],"namespaces":[{"prefix":"_base","uri":"https://www.uniprot.org/uniprot/testbase"},{"prefix":"UniProtKB","uri":"https://www.uniprot.org/uniprot/"},{"prefix":"uniprot","uri":"https://www.uniprot.org/uniprotkb/"}],"text":"As a complementary reciprocal approach, we conducted a de novo search of immunogenic peptides against the 2019-nCov proteome sequence. We scanned 9-mers from 2019-nCoV proteome with a window of 9 amino acids and step length of 1 amino acid (9613 in total). The immunogenicity of 9-mer peptides were predicted using iPred and MHC presentation scores were gauged using NetMHCpan 4.0 6 for various HLA types. In this task, we focused on haplotypes common in Chinese and European populations, which include HLA-A*02:01, HLA-A*01:01, HLA-B*07:02, HLA-B*40:01 and HLA-C*07:02 alleles (Data Table 3 4)."}

{"project":"2_test","denotations":[{"id":"32269766-28978689-30420972","span":{"begin":381,"end":382},"obj":"28978689"}],"text":"As a complementary reciprocal approach, we conducted a de novo search of immunogenic peptides against the 2019-nCov proteome sequence. We scanned 9-mers from 2019-nCoV proteome with a window of 9 amino acids and step length of 1 amino acid (9613 in total). The immunogenicity of 9-mer peptides were predicted using iPred and MHC presentation scores were gauged using NetMHCpan 4.0 6 for various HLA types. In this task, we focused on haplotypes common in Chinese and European populations, which include HLA-A*02:01, HLA-A*01:01, HLA-B*07:02, HLA-B*40:01 and HLA-C*07:02 alleles (Data Table 3 4)."}