PMC:7073332 / 40944-41876 JSONTXT

{"project":"LitCovid-PubTator","denotations":[{"id":"1116","span":{"begin":658,"end":663},"obj":"Species"},{"id":"1117","span":{"begin":911,"end":916},"obj":"Species"}],"attributes":[{"id":"A1116","pred":"tao:has_database_id","subj":"1116","obj":"Tax:9606"},{"id":"A1117","pred":"tao:has_database_id","subj":"1117","obj":"Tax:9606"}],"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":" 3D structures; (iii) kinase-substrate interactions by literature-derived low-throughput or high-throughput experiments; (iv) signaling network by literature-derived low-throughput experiments; and (v) literature-curated PPIs identified by affinity purification followed by mass spectrometry (AP-MS), Y2H, or by literature-derived low-throughput experiments. All inferred data, including evolutionary analysis, gene expression data, and metabolic associations, were excluded. The genes were mapped to their Entrez ID based on the NCBI database92 as well as their official gene symbols based on GeneCards (https://www.genecards.org/). In total, the resulting human protein–protein interactome used in this study includes 351,444 unique PPIs (edges or links) connecting 17,706 proteins (nodes), representing a 50% increase in the number of the PPIs we have used previously. Detailed descriptions for building the human protein–protein"}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T200","span":{"begin":411,"end":415},"obj":"Body_part"},{"id":"T201","span":{"begin":572,"end":576},"obj":"Body_part"},{"id":"T202","span":{"begin":664,"end":671},"obj":"Body_part"},{"id":"T203","span":{"begin":672,"end":679},"obj":"Body_part"},{"id":"T204","span":{"begin":775,"end":783},"obj":"Body_part"},{"id":"T205","span":{"begin":917,"end":924},"obj":"Body_part"},{"id":"T206","span":{"begin":925,"end":932},"obj":"Body_part"}],"attributes":[{"id":"A200","pred":"fma_id","subj":"T200","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A201","pred":"fma_id","subj":"T201","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A202","pred":"fma_id","subj":"T202","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A203","pred":"fma_id","subj":"T203","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A204","pred":"fma_id","subj":"T204","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A205","pred":"fma_id","subj":"T205","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A206","pred":"fma_id","subj":"T206","obj":"http://purl.org/sig/ont/fma/fma67257"}],"text":" 3D structures; (iii) kinase-substrate interactions by literature-derived low-throughput or high-throughput experiments; (iv) signaling network by literature-derived low-throughput experiments; and (v) literature-curated PPIs identified by affinity purification followed by mass spectrometry (AP-MS), Y2H, or by literature-derived low-throughput experiments. All inferred data, including evolutionary analysis, gene expression data, and metabolic associations, were excluded. The genes were mapped to their Entrez ID based on the NCBI database92 as well as their official gene symbols based on GeneCards (https://www.genecards.org/). In total, the resulting human protein–protein interactome used in this study includes 351,444 unique PPIs (edges or links) connecting 17,706 proteins (nodes), representing a 50% increase in the number of the PPIs we have used previously. Detailed descriptions for building the human protein–protein"}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T284","span":{"begin":126,"end":135},"obj":"http://purl.obolibrary.org/obo/SO_0000418"},{"id":"T285","span":{"begin":293,"end":295},"obj":"http://purl.obolibrary.org/obo/CLO_0001547"},{"id":"T286","span":{"begin":296,"end":298},"obj":"http://purl.obolibrary.org/obo/CLO_0007874"},{"id":"T287","span":{"begin":411,"end":415},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T288","span":{"begin":480,"end":485},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T289","span":{"begin":572,"end":576},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T290","span":{"begin":658,"end":671},"obj":"http://purl.obolibrary.org/obo/PR_000029067"},{"id":"T291","span":{"begin":806,"end":807},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T292","span":{"begin":911,"end":924},"obj":"http://purl.obolibrary.org/obo/PR_000029067"}],"text":" 3D structures; (iii) kinase-substrate interactions by literature-derived low-throughput or high-throughput experiments; (iv) signaling network by literature-derived low-throughput experiments; and (v) literature-curated PPIs identified by affinity purification followed by mass spectrometry (AP-MS), Y2H, or by literature-derived low-throughput experiments. All inferred data, including evolutionary analysis, gene expression data, and metabolic associations, were excluded. The genes were mapped to their Entrez ID based on the NCBI database92 as well as their official gene symbols based on GeneCards (https://www.genecards.org/). In total, the resulting human protein–protein interactome used in this study includes 351,444 unique PPIs (edges or links) connecting 17,706 proteins (nodes), representing a 50% increase in the number of the PPIs we have used previously. Detailed descriptions for building the human protein–protein"}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T454","span":{"begin":293,"end":295},"obj":"Chemical"},{"id":"T457","span":{"begin":296,"end":298},"obj":"Chemical"},{"id":"T458","span":{"begin":514,"end":516},"obj":"Chemical"},{"id":"T459","span":{"begin":664,"end":671},"obj":"Chemical"},{"id":"T460","span":{"begin":672,"end":679},"obj":"Chemical"},{"id":"T461","span":{"begin":775,"end":783},"obj":"Chemical"},{"id":"T462","span":{"begin":917,"end":924},"obj":"Chemical"},{"id":"T463","span":{"begin":925,"end":932},"obj":"Chemical"}],"attributes":[{"id":"A454","pred":"chebi_id","subj":"T454","obj":"http://purl.obolibrary.org/obo/CHEBI_28971"},{"id":"A455","pred":"chebi_id","subj":"T454","obj":"http://purl.obolibrary.org/obo/CHEBI_73393"},{"id":"A456","pred":"chebi_id","subj":"T454","obj":"http://purl.obolibrary.org/obo/CHEBI_81686"},{"id":"A457","pred":"chebi_id","subj":"T457","obj":"http://purl.obolibrary.org/obo/CHEBI_73613"},{"id":"A458","pred":"chebi_id","subj":"T458","obj":"http://purl.obolibrary.org/obo/CHEBI_141439"},{"id":"A459","pred":"chebi_id","subj":"T459","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A460","pred":"chebi_id","subj":"T460","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A461","pred":"chebi_id","subj":"T461","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A462","pred":"chebi_id","subj":"T462","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A463","pred":"chebi_id","subj":"T463","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"}],"text":" 3D structures; (iii) kinase-substrate interactions by literature-derived low-throughput or high-throughput experiments; (iv) signaling network by literature-derived low-throughput experiments; and (v) literature-curated PPIs identified by affinity purification followed by mass spectrometry (AP-MS), Y2H, or by literature-derived low-throughput experiments. All inferred data, including evolutionary analysis, gene expression data, and metabolic associations, were excluded. The genes were mapped to their Entrez ID based on the NCBI database92 as well as their official gene symbols based on GeneCards (https://www.genecards.org/). In total, the resulting human protein–protein interactome used in this study includes 351,444 unique PPIs (edges or links) connecting 17,706 proteins (nodes), representing a 50% increase in the number of the PPIs we have used previously. Detailed descriptions for building the human protein–protein"}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T61","span":{"begin":126,"end":135},"obj":"http://purl.obolibrary.org/obo/GO_0023052"},{"id":"T62","span":{"begin":411,"end":426},"obj":"http://purl.obolibrary.org/obo/GO_0010467"}],"text":" 3D structures; (iii) kinase-substrate interactions by literature-derived low-throughput or high-throughput experiments; (iv) signaling network by literature-derived low-throughput experiments; and (v) literature-curated PPIs identified by affinity purification followed by mass spectrometry (AP-MS), Y2H, or by literature-derived low-throughput experiments. All inferred data, including evolutionary analysis, gene expression data, and metabolic associations, were excluded. The genes were mapped to their Entrez ID based on the NCBI database92 as well as their official gene symbols based on GeneCards (https://www.genecards.org/). In total, the resulting human protein–protein interactome used in this study includes 351,444 unique PPIs (edges or links) connecting 17,706 proteins (nodes), representing a 50% increase in the number of the PPIs we have used previously. Detailed descriptions for building the human protein–protein"}

{"project":"LitCovid-sentences","denotations":[{"id":"T255","span":{"begin":359,"end":475},"obj":"Sentence"},{"id":"T256","span":{"begin":476,"end":633},"obj":"Sentence"},{"id":"T257","span":{"begin":634,"end":871},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":" 3D structures; (iii) kinase-substrate interactions by literature-derived low-throughput or high-throughput experiments; (iv) signaling network by literature-derived low-throughput experiments; and (v) literature-curated PPIs identified by affinity purification followed by mass spectrometry (AP-MS), Y2H, or by literature-derived low-throughput experiments. All inferred data, including evolutionary analysis, gene expression data, and metabolic associations, were excluded. The genes were mapped to their Entrez ID based on the NCBI database92 as well as their official gene symbols based on GeneCards (https://www.genecards.org/). In total, the resulting human protein–protein interactome used in this study includes 351,444 unique PPIs (edges or links) connecting 17,706 proteins (nodes), representing a 50% increase in the number of the PPIs we have used previously. Detailed descriptions for building the human protein–protein"}

{"project":"2_test","denotations":[{"id":"32194980-26615191-19614261","span":{"begin":543,"end":545},"obj":"26615191"}],"text":" 3D structures; (iii) kinase-substrate interactions by literature-derived low-throughput or high-throughput experiments; (iv) signaling network by literature-derived low-throughput experiments; and (v) literature-curated PPIs identified by affinity purification followed by mass spectrometry (AP-MS), Y2H, or by literature-derived low-throughput experiments. All inferred data, including evolutionary analysis, gene expression data, and metabolic associations, were excluded. The genes were mapped to their Entrez ID based on the NCBI database92 as well as their official gene symbols based on GeneCards (https://www.genecards.org/). In total, the resulting human protein–protein interactome used in this study includes 351,444 unique PPIs (edges or links) connecting 17,706 proteins (nodes), representing a 50% increase in the number of the PPIs we have used previously. Detailed descriptions for building the human protein–protein"}