{"id":"https://openalex.org/W3147481189","doi":"https://doi.org/10.1371/journal.pcbi.1008860","title":"Genome Scale-Differential Flux Analysis reveals deregulation of lung cell metabolism on SARS-CoV-2 infection","display_name":"Genome Scale-Differential Flux Analysis reveals deregulation of lung cell metabolism on SARS-CoV-2 infection","publication_year":2021,"publication_date":"2021-04-09","ids":{"openalex":"https://openalex.org/W3147481189","doi":"https://doi.org/10.1371/journal.pcbi.1008860","mag":"3147481189","pmid":"https://pubmed.ncbi.nlm.nih.gov/33835998"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1008860","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008860","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008860&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008860&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Piyush Nanda","orcid":"https://orcid.org/0000-0002-5969-5092"},"institutions":[{"id":"https://openalex.org/I145894827","display_name":"Indian Institute of Technology Kharagpur","ror":"https://ror.org/03w5sq511","country_code":"IN","type":"education","lineage":["https://openalex.org/I145894827"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Piyush Nanda","raw_affiliation_strings":["Department of Biotechnology, Indian Institute of Technology Kharagpur, West Bengal, India"],"raw_orcid":"https://orcid.org/0000-0002-5969-5092","affiliations":[{"raw_affiliation_string":"Department of Biotechnology, Indian Institute of Technology Kharagpur, West Bengal, India","institution_ids":["https://openalex.org/I145894827"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5039187573","display_name":"Amit Ghosh","orcid":"https://orcid.org/0000-0003-3514-885X"},"institutions":[{"id":"https://openalex.org/I145894827","display_name":"Indian Institute of Technology Kharagpur","ror":"https://ror.org/03w5sq511","country_code":"IN","type":"education","lineage":["https://openalex.org/I145894827"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Amit Ghosh","raw_affiliation_strings":["P.K. Sinha Centre for Bioenergy and Renewables, Indian Institute of Technology Kharagpur, West Bengal, India","School of Energy Science and Engineering, Indian Institute of Technology Kharagpur, West Bengal, India"],"raw_orcid":"https://orcid.org/0000-0003-3514-885X","affiliations":[{"raw_affiliation_string":"P.K. Sinha Centre for Bioenergy and Renewables, Indian Institute of Technology Kharagpur, West Bengal, India","institution_ids":["https://openalex.org/I145894827"]},{"raw_affiliation_string":"School of Energy Science and Engineering, Indian Institute of Technology Kharagpur, West Bengal, India","institution_ids":["https://openalex.org/I145894827"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5039187573"],"corresponding_institution_ids":["https://openalex.org/I145894827"],"apc_list":{"value":2575,"currency":"USD","value_usd":2575},"apc_paid":{"value":2575,"currency":"USD","value_usd":2575},"fwci":3.7298,"has_fulltext":true,"cited_by_count":48,"citation_normalized_percentile":{"value":0.94819154,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":88,"max":100},"biblio":{"volume":"17","issue":"4","first_page":"e1008860","last_page":"e1008860"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9979000091552734,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9979000091552734,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9965000152587891,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10301","display_name":"Mitochondrial Function and Pathology","score":0.9869999885559082,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/flux-balance-analysis","display_name":"Flux balance analysis","score":0.6922063231468201},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.688852846622467},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6851668357849121},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.6022173762321472},{"id":"https://openalex.org/keywords/flux","display_name":"Flux (metallurgy)","score":0.5271011590957642},{"id":"https://openalex.org/keywords/metabolomics","display_name":"Metabolomics","score":0.46083125472068787},{"id":"https://openalex.org/keywords/metabolic-pathway","display_name":"Metabolic pathway","score":0.4417186379432678},{"id":"https://openalex.org/keywords/host\u2013pathogen-interaction","display_name":"Host\u2013pathogen interaction","score":0.43518784642219543},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.43294423818588257},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.4215050935745239},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.40024083852767944},{"id":"https://openalex.org/keywords/metabolism","display_name":"Metabolism","score":0.373757541179657},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.36519908905029297},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.32513707876205444},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.2690353989601135},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.25876861810684204},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.2275315225124359},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.20533448457717896},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.1785946786403656},{"id":"https://openalex.org/keywords/virulence","display_name":"Virulence","score":0.09244167804718018}],"concepts":[{"id":"https://openalex.org/C167091322","wikidata":"https://www.wikidata.org/wiki/Q5463029","display_name":"Flux balance analysis","level":2,"score":0.6922063231468201},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.688852846622467},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6851668357849121},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.6022173762321472},{"id":"https://openalex.org/C68709404","wikidata":"https://www.wikidata.org/wiki/Q1134475","display_name":"Flux (metallurgy)","level":2,"score":0.5271011590957642},{"id":"https://openalex.org/C21565614","wikidata":"https://www.wikidata.org/wiki/Q12149006","display_name":"Metabolomics","level":2,"score":0.46083125472068787},{"id":"https://openalex.org/C192989942","wikidata":"https://www.wikidata.org/wiki/Q68685","display_name":"Metabolic pathway","level":3,"score":0.4417186379432678},{"id":"https://openalex.org/C2778375072","wikidata":"https://www.wikidata.org/wiki/Q5909198","display_name":"Host\u2013pathogen interaction","level":4,"score":0.43518784642219543},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.43294423818588257},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.4215050935745239},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.40024083852767944},{"id":"https://openalex.org/C62231903","wikidata":"https://www.wikidata.org/wiki/Q1057","display_name":"Metabolism","level":2,"score":0.373757541179657},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.36519908905029297},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.32513707876205444},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.2690353989601135},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.25876861810684204},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.2275315225124359},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.20533448457717896},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.1785946786403656},{"id":"https://openalex.org/C60987743","wikidata":"https://www.wikidata.org/wiki/Q1460232","display_name":"Virulence","level":3,"score":0.09244167804718018},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000254","qualifier_name":"growth & development","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000254","qualifier_name":"growth & development","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000254","qualifier_name":"growth & development","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001980","descriptor_name":"Bronchi","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001980","descriptor_name":"Bronchi","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001980","descriptor_name":"Bronchi","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001980","descriptor_name":"Bronchi","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D001980","descriptor_name":"Bronchi","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D001980","descriptor_name":"Bronchi","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D002478","descriptor_name":"Cells, Cultured","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002478","descriptor_name":"Cells, Cultured","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002478","descriptor_name":"Cells, Cultured","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018533","descriptor_name":"Biomass","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018533","descriptor_name":"Biomass","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018533","descriptor_name":"Biomass","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064688","descriptor_name":"Metabolic Flux Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D064688","descriptor_name":"Metabolic Flux Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D064688","descriptor_name":"Metabolic Flux Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1008860","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008860","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008860&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:33835998","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33835998","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8034727","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8034727","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:389a978aa40e4b3ab4e556f544cd0928","is_oa":true,"landing_page_url":"https://doaj.org/article/389a978aa40e4b3ab4e556f544cd0928","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 17, Iss 4, p e1008860 (2021)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1008860","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008860","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008860&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.8600000143051147,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3147481189.pdf","grobid_xml":"https://content.openalex.org/works/W3147481189.grobid-xml"},"referenced_works_count":62,"referenced_works":["https://openalex.org/W1998633945","https://openalex.org/W2007187686","https://openalex.org/W2019516978","https://openalex.org/W2062090250","https://openalex.org/W2076262841","https://openalex.org/W2078355959","https://openalex.org/W2095237346","https://openalex.org/W2099787654","https://openalex.org/W2104108767","https://openalex.org/W2110015442","https://openalex.org/W2119000371","https://openalex.org/W2120469353","https://openalex.org/W2128377635","https://openalex.org/W2134866108","https://openalex.org/W2144589197","https://openalex.org/W2167019990","https://openalex.org/W2171560951","https://openalex.org/W2223326830","https://openalex.org/W2275381817","https://openalex.org/W2520033800","https://openalex.org/W2524141079","https://openalex.org/W2587946751","https://openalex.org/W2590457070","https://openalex.org/W2611848952","https://openalex.org/W2746482698","https://openalex.org/W2762019694","https://openalex.org/W2770715322","https://openalex.org/W2787133039","https://openalex.org/W2789128799","https://openalex.org/W2874045491","https://openalex.org/W2889305184","https://openalex.org/W2891323615","https://openalex.org/W2901081565","https://openalex.org/W2910499089","https://openalex.org/W2945336613","https://openalex.org/W2950093550","https://openalex.org/W2952015518","https://openalex.org/W2997046468","https://openalex.org/W2998840182","https://openalex.org/W3006138245","https://openalex.org/W3013186573","https://openalex.org/W3013554928","https://openalex.org/W3015123576","https://openalex.org/W3015136087","https://openalex.org/W3015361654","https://openalex.org/W3016489853","https://openalex.org/W3020453958","https://openalex.org/W3022285953","https://openalex.org/W3025091645","https://openalex.org/W3026002191","https://openalex.org/W3036255694","https://openalex.org/W3036391214","https://openalex.org/W3037945517","https://openalex.org/W3039377995","https://openalex.org/W3104330234","https://openalex.org/W3118148588","https://openalex.org/W3118932141","https://openalex.org/W3120452895","https://openalex.org/W6775059760","https://openalex.org/W6775140953","https://openalex.org/W6785852897","https://openalex.org/W6787987702"],"related_works":["https://openalex.org/W4288069755","https://openalex.org/W1854805732","https://openalex.org/W2166430819","https://openalex.org/W3201283333","https://openalex.org/W3180007124","https://openalex.org/W4229007988","https://openalex.org/W2341681417","https://openalex.org/W1971436540","https://openalex.org/W2020641517","https://openalex.org/W2888916199"],"abstract_inverted_index":{"The":[0,76],"COVID-19":[1,49],"pandemic":[2],"is":[3,16],"posing":[4],"an":[5,53,130],"unprecedented":[6],"threat":[7],"to":[8,19,46,113,144,167,205,219,231],"the":[9,21,36,74,83,89,111,114,134,146,160,236],"whole":[10],"world.":[11],"In":[12,182],"this":[13],"regard,":[14],"it":[15],"absolutely":[17],"imperative":[18],"understand":[20,145,232],"mechanism":[22,147],"of":[23,26,35,43,58,73,82,125,133,148,184,222,238],"metabolic":[24,37,56,107,121,233],"reprogramming":[25],"host":[27,152],"human":[28,60],"cells":[29,63],"by":[30,164],"SARS-CoV-2.":[31],"A":[32],"better":[33,44],"understanding":[34],"alterations":[38],"would":[39],"aid":[40],"in":[41,85,105,151,228],"design":[42],"therapeutics":[45],"deal":[47],"with":[48,66,88,171,199,211],"pandemic.":[50],"We":[51,109,128,154],"developed":[52],"integrated":[54,131],"genome-scale":[55,100],"model":[57,78,116],"normal":[59],"bronchial":[61],"epithelial":[62],"(NHBE)":[64],"infected":[65],"SARS-CoV-2":[67,185],"using":[68],"gene-expression":[69],"and":[70,117,141,174,195],"macromolecular":[71],"make-up":[72],"virus.":[75],"reconstructed":[77],"predicts":[79],"growth":[80],"rates":[81],"virus":[84],"high":[86],"agreement":[87],"experimental":[90],"measured":[91],"values.":[92],"Furthermore,":[93],"we":[94],"report":[95],"a":[96],"method":[97,112,166],"for":[98],"conducting":[99],"differential":[101,177],"flux":[102,149],"analysis":[103,132],"(GS-DFA)":[104],"context-specific":[106,115],"models.":[108],"apply":[110],"identify":[118],"severely":[119],"affected":[120,208],"modules":[122],"predominantly":[123],"comprising":[124],"lipid":[126,187],"metabolism.":[127],"conduct":[129],"flux-altered":[135],"reactions,":[136],"host-virus":[137],"protein-protein":[138],"interaction":[139],"network":[140],"phospho-proteomics":[142],"data":[143,227],"alteration":[150],"cells.":[153],"show":[155],"that":[156],"several":[157],"enzymes":[158],"driving":[159],"altered":[161],"reactions":[162],"inferred":[163],"our":[165],"be":[168,206,217],"directly":[169],"interacting":[170],"viral":[172],"proteins":[173],"also":[175],"undergoing":[176],"phosphorylation":[178],"under":[179],"diseased":[180,229],"state.":[181],"case":[183],"infection,":[186],"metabolism":[188,202],"particularly":[189],"fatty":[190],"acid":[191,201],"oxidation,":[192],"cholesterol":[193],"biosynthesis":[194],"beta-oxidation":[196],"cycle":[197],"along":[198],"arachidonic":[200],"are":[203],"predicted":[204],"most":[207],"which":[209],"confirms":[210],"clinical":[212],"metabolomics":[213],"studies.":[214],"GS-DFA":[215],"can":[216],"applied":[218],"existing":[220],"repertoire":[221],"high-throughput":[223],"proteomic":[224],"or":[225],"transcriptomic":[226],"condition":[230],"deregulation":[234],"at":[235],"level":[237],"flux.":[239]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":17},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":1}],"updated_date":"2026-08-28T12:50:07.497085","created_date":"2025-10-10T00:00:00"}
