PMC:7532482 / 10281-11186 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7532482","sourcedb":"PMC","sourceid":"7532482","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7532482","text":"Identification of candidate genes (CGs) and enrichment analysis of CGs\nThe CGs were filtered with R software using the Venn Diagram package (https://cran.r-project.org/web/packages/VennDiagram/index.html). The CGs would be used for Gene Ontology (GO) analysis (including biological processes (BP), molecular functions (MF), and cellular components (CC)) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. GO and KEGG pathway analyses results were processed by the “enrichplot” (http://www.bioconductor.org/packages/release/bioc/html/enrichplot.html) “clusterProfiler” (http://www.bioconductor.org/packages/release/bioc/html/clusterProfiler.html) and “ggplot2” packages by R software. A P value of less than 0.05 was used regarded as statistically significant. At the same time, we input CGs into DAVID (https://david.ncifcrf.gov/) for functional enrichment analysis to obtain disease clustering.","divisions":[{"label":"title","span":{"begin":0,"end":70}}],"tracks":[{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T21","span":{"begin":232,"end":236},"obj":"Body_part"},{"id":"T22","span":{"begin":390,"end":397},"obj":"Body_part"}],"attributes":[{"id":"A21","pred":"fma_id","subj":"T21","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A22","pred":"fma_id","subj":"T22","obj":"http://purl.org/sig/ont/fma/fma84116"},{"subj":"T21","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T22","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T49","span":{"begin":319,"end":321},"obj":"Disease"}],"attributes":[{"id":"A49","pred":"mondo_id","subj":"T49","obj":"http://purl.obolibrary.org/obo/MONDO_0009691"},{"id":"A50","pred":"mondo_id","subj":"T49","obj":"http://purl.obolibrary.org/obo/MONDO_0020481"},{"subj":"T49","pred":"source","obj":"LitCovid-PD-MONDO"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T94","span":{"begin":28,"end":33},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T95","span":{"begin":232,"end":236},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T96","span":{"begin":328,"end":347},"obj":"http://purl.obolibrary.org/obo/GO_0005575"},{"id":"T97","span":{"begin":349,"end":351},"obj":"http://purl.obolibrary.org/obo/GO_0005575"},{"id":"T98","span":{"begin":380,"end":385},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T99","span":{"begin":694,"end":697},"obj":"http://purl.obolibrary.org/obo/CLO_0001547"}],"attributes":[{"subj":"T94","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T95","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T96","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T97","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T98","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T99","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T64","span":{"begin":293,"end":295},"obj":"Chemical"},{"id":"T65","span":{"begin":319,"end":321},"obj":"Chemical"},{"id":"T66","span":{"begin":349,"end":351},"obj":"Chemical"}],"attributes":[{"id":"A64","pred":"chebi_id","subj":"T64","obj":"http://purl.obolibrary.org/obo/CHEBI_29865"},{"id":"A65","pred":"chebi_id","subj":"T65","obj":"http://purl.obolibrary.org/obo/CHEBI_74708"},{"id":"A66","pred":"chebi_id","subj":"T66","obj":"http://purl.obolibrary.org/obo/CHEBI_28940"},{"subj":"T64","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T65","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T66","pred":"source","obj":"LitCovid-PD-CHEBI"}]},{"project":"LitCovid-PubTator","denotations":[{"id":"461","span":{"begin":35,"end":37},"obj":"Chemical"}],"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_"}],"attributes":[{"subj":"461","pred":"source","obj":"LitCovid-PubTator"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T79","span":{"begin":0,"end":70},"obj":"Sentence"},{"id":"T80","span":{"begin":71,"end":205},"obj":"Sentence"},{"id":"T81","span":{"begin":206,"end":414},"obj":"Sentence"},{"id":"T82","span":{"begin":415,"end":693},"obj":"Sentence"},{"id":"T83","span":{"begin":694,"end":769},"obj":"Sentence"},{"id":"T84","span":{"begin":770,"end":905},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T79","pred":"source","obj":"LitCovid-sentences"},{"subj":"T80","pred":"source","obj":"LitCovid-sentences"},{"subj":"T81","pred":"source","obj":"LitCovid-sentences"},{"subj":"T82","pred":"source","obj":"LitCovid-sentences"},{"subj":"T83","pred":"source","obj":"LitCovid-sentences"},{"subj":"T84","pred":"source","obj":"LitCovid-sentences"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PD-FMA-UBERON","color":"#ec9493","default":true},{"id":"LitCovid-PD-MONDO","color":"#93abec"},{"id":"LitCovid-PD-CLO","color":"#c5ec93"},{"id":"LitCovid-PD-CHEBI","color":"#ec93df"},{"id":"LitCovid-PubTator","color":"#93ecdf"},{"id":"LitCovid-sentences","color":"#ecc593"}]}]}}