{"id":"https://openalex.org/W2404944565","doi":"https://doi.org/10.15252/msb.20156777","title":"Chemogenomics and orthology\u2010based design of antibiotic combination therapies","display_name":"Chemogenomics and orthology\u2010based design of antibiotic combination therapies","publication_year":2016,"publication_date":"2016-05-01","ids":{"openalex":"https://openalex.org/W2404944565","doi":"https://doi.org/10.15252/msb.20156777","mag":"2404944565","pmid":"https://pubmed.ncbi.nlm.nih.gov/27222539","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/5289223"},"language":"en","primary_location":{"id":"doi:10.15252/msb.20156777","doi":"https://doi.org/10.15252/msb.20156777","is_oa":true,"landing_page_url":"https://doi.org/10.15252/msb.20156777","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.15252/msb.20156777","source":{"id":"https://openalex.org/S200893805","display_name":"Molecular Systems Biology","issn_l":"1744-4292","issn":["1744-4292"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1"],"host_organization":"https://openalex.org/P4310319965","host_organization_name":"Springer Nature","host_organization_lineage":["https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Nature"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular Systems Biology","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.15252/msb.20156777","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029772342","display_name":"Sriram Chandrasekaran","orcid":"https://orcid.org/0000-0002-8405-5708","observed_orcids":["https://orcid.org/0000-0002-8405-5708"]},"institutions":[{"id":"https://openalex.org/I107606265","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I107606265"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I44142251","display_name":"Wyss Institute for Biologically Inspired Engineering","ror":"https://ror.org/008cfmj78","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I44142251"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sriram Chandrasekaran","raw_affiliation_strings":["Harvard Society of Fellows, Faculty of Arts and Sciences, Harvard University, Cambridge, MA, USA Broad Institute of MIT and Harvard, Cambridge, MA, USA Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA, USA chandrasekaran@fas.harvard.edu murat_cokol@hms.harvard.edu","Broad Institute of MIT and Harvard Cambridge MA USA","Harvard Society of Fellows Faculty of Arts and Sciences Harvard University Cambridge MA USA","Wyss Institute for Biologically Inspired Engineering Harvard University Cambridge MA USA"],"raw_orcid":"https://orcid.org/0000-0002-8405-5708","affiliations":[{"raw_affiliation_string":"Harvard Society of Fellows, Faculty of Arts and Sciences, Harvard University, Cambridge, MA, USA Broad Institute of MIT and Harvard, Cambridge, MA, USA Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA, USA chandrasekaran@fas.harvard.edu murat_cokol@hms.harvard.edu","institution_ids":["https://openalex.org/I107606265","https://openalex.org/I136199984","https://openalex.org/I44142251","https://openalex.org/I63966007"]},{"raw_affiliation_string":"Broad Institute of MIT and Harvard Cambridge MA USA","institution_ids":["https://openalex.org/I107606265"]},{"raw_affiliation_string":"Harvard Society of Fellows Faculty of Arts and Sciences Harvard University Cambridge MA USA","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Wyss Institute for Biologically Inspired Engineering Harvard University Cambridge MA USA","institution_ids":["https://openalex.org/I136199984","https://openalex.org/I44142251"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026239664","display_name":"Melike \u00c7okol \u00c7akmak","orcid":"https://orcid.org/0000-0002-1846-6517","observed_orcids":["https://orcid.org/0000-0002-1846-6517"]},"institutions":[{"id":"https://openalex.org/I134235054","display_name":"Sabanc\u0131 \u00dcniversitesi","ror":"https://ror.org/049asqa32","country_code":"TR","type":"education","lineage":["https://openalex.org/I134235054"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Melike Cokol\u2010Cakmak","raw_affiliation_strings":["Faculty of Engineering and Natural Sciences, Sabanci University, Istanbul, Turkey"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Engineering and Natural Sciences, Sabanci University, Istanbul, Turkey","institution_ids":["https://openalex.org/I134235054"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Nil Sahin","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I134235054","display_name":"Sabanc\u0131 \u00dcniversitesi","ror":"https://ror.org/049asqa32","country_code":"TR","type":"education","lineage":["https://openalex.org/I134235054"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Nil Sahin","raw_affiliation_strings":["Faculty of Engineering and Natural Sciences, Sabanci University, Istanbul, Turkey"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Engineering and Natural Sciences, Sabanci University, Istanbul, Turkey","institution_ids":["https://openalex.org/I134235054"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103259537","display_name":"Kaan Y\u0131lanc\u0131o\u011flu","orcid":"https://orcid.org/0000-0001-7105-0898","observed_orcids":["https://orcid.org/0000-0001-7105-0898"]},"institutions":[{"id":"https://openalex.org/I1281256770","display_name":"\u00dcsk\u00fcdar University","ror":"https://ror.org/02dzjmc73","country_code":"TR","type":"education","lineage":["https://openalex.org/I1281256770"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Kaan Yilancioglu","raw_affiliation_strings":["Department of Molecular Biology and Genetics, Uskudar University, Istanbul, Turkey"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology and Genetics, Uskudar University, Istanbul, Turkey","institution_ids":["https://openalex.org/I1281256770"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074332682","display_name":"Hilal Kazan","orcid":"https://orcid.org/0000-0003-2461-4579","observed_orcids":["https://orcid.org/0000-0003-2461-4579"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Hilal Kazan","raw_affiliation_strings":["Department of Computer Engineering, Antalya International University, Antalya, Turkey"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Antalya International University, Antalya, Turkey","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065209470","display_name":"James J. Collins","orcid":"https://orcid.org/0000-0002-5560-8246","observed_orcids":["https://orcid.org/0000-0002-5560-8246"]},"institutions":[{"id":"https://openalex.org/I107606265","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I107606265"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I44142251","display_name":"Wyss Institute for Biologically Inspired Engineering","ror":"https://ror.org/008cfmj78","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I44142251"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James J Collins","raw_affiliation_strings":["Broad Institute of MIT and Harvard, Cambridge, MA, USA Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA, USA Department of Biological Engineering, Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA, USA Synthetic Biology Center, Massachusetts Institute of Technology, Cambridge, MA, USA Harvard-MIT Program in Health Sciences and Technology, Cambridge, MA, USA","Broad Institute of MIT and Harvard Cambridge MA USA","Department of Biological Engineering Institute for Medical Engineering &amp; Science Massachusetts Institute of Technology Cambridge MA USA","Harvard-MIT Program in Health Sciences and Technology Cambridge MA USA","Synthetic Biology Center Massachusetts Institute of Technology Cambridge MA USA","Wyss Institute for Biologically Inspired Engineering Harvard University Cambridge MA USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Broad Institute of MIT and Harvard, Cambridge, MA, USA Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA, USA Department of Biological Engineering, Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA, USA Synthetic Biology Center, Massachusetts Institute of Technology, Cambridge, MA, USA Harvard-MIT Program in Health Sciences and Technology, Cambridge, MA, USA","institution_ids":["https://openalex.org/I107606265","https://openalex.org/I136199984","https://openalex.org/I44142251","https://openalex.org/I63966007"]},{"raw_affiliation_string":"Broad Institute of MIT and Harvard Cambridge MA USA","institution_ids":["https://openalex.org/I107606265"]},{"raw_affiliation_string":"Department of Biological Engineering Institute for Medical Engineering &amp; Science Massachusetts Institute of Technology Cambridge MA USA","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"Harvard-MIT Program in Health Sciences and Technology Cambridge MA USA","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"Synthetic Biology Center Massachusetts Institute of Technology Cambridge MA USA","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"Wyss Institute for Biologically Inspired Engineering Harvard University Cambridge MA USA","institution_ids":["https://openalex.org/I136199984","https://openalex.org/I44142251"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5007142989","display_name":"Murat Cokol","orcid":"https://orcid.org/0000-0001-9084-3367","observed_orcids":["https://orcid.org/0000-0001-9084-3367"]},"institutions":[{"id":"https://openalex.org/I121934306","display_name":"Tufts University","ror":"https://ror.org/05wvpxv85","country_code":"US","type":"education","lineage":["https://openalex.org/I121934306"]},{"id":"https://openalex.org/I134235054","display_name":"Sabanc\u0131 \u00dcniversitesi","ror":"https://ror.org/049asqa32","country_code":"TR","type":"education","lineage":["https://openalex.org/I134235054"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["TR","US"],"is_corresponding":true,"raw_author_name":"Murat Cokol","raw_affiliation_strings":["Faculty of Engineering and Natural Sciences, Sabanci University, Istanbul, Turkey Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, MA, USA Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA chandrasekaran@fas.harvard.edu murat_cokol@hms.harvard.edu","Department of Molecular Biology and Microbiology Tufts University School of Medicine Boston MA USA","Faculty of Engineering and Natural Sciences Sabanci University Istanbul Turkey","Laboratory of Systems Pharmacology Harvard Medical School Boston MA USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Engineering and Natural Sciences, Sabanci University, Istanbul, Turkey Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, MA, USA Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA chandrasekaran@fas.harvard.edu murat_cokol@hms.harvard.edu","institution_ids":["https://openalex.org/I121934306","https://openalex.org/I134235054","https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Molecular Biology and Microbiology Tufts University School of Medicine Boston MA USA","institution_ids":["https://openalex.org/I121934306"]},{"raw_affiliation_string":"Faculty of Engineering and Natural Sciences Sabanci University Istanbul Turkey","institution_ids":["https://openalex.org/I134235054"]},{"raw_affiliation_string":"Laboratory of Systems Pharmacology Harvard Medical School Boston MA USA","institution_ids":["https://openalex.org/I136199984"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5007142989","https://openalex.org/A5029772342"],"corresponding_institution_ids":["https://openalex.org/I107606265","https://openalex.org/I121934306","https://openalex.org/I134235054","https://openalex.org/I136199984","https://openalex.org/I44142251","https://openalex.org/I63966007"],"apc_list":{"value":7990,"currency":"USD","value_usd":7990},"apc_paid":{"value":7990,"currency":"USD","value_usd":7990},"fwci":11.0999,"has_fulltext":true,"cited_by_count":115,"citation_normalized_percentile":{"value":0.98788647,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"12","issue":"5","first_page":"872","last_page":"872"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.5967000126838684,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.5967000126838684,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.1940000057220459,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.04670000076293945,"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/combination-antibiotic-therapy","display_name":"combination antibiotic therapy","score":0.8090000152587891},{"id":"https://openalex.org/keywords/chemogenomics","display_name":"chemogenomics","score":0.949999988079071},{"id":"https://openalex.org/keywords/drug-synergy-prediction","display_name":"drug synergy prediction","score":0.6480000019073486},{"id":"https://openalex.org/keywords/drug-antagonism","display_name":"drug antagonism","score":0.7459999918937683},{"id":"https://openalex.org/keywords/indigo","display_name":"indigo","score":0.621999979019165},{"id":"https://openalex.org/keywords/orthologs","display_name":"orthologs","score":0.8190000057220459},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.949999988079071},{"id":"https://openalex.org/keywords/mycobacterium-tuberculosis","display_name":"Mycobacterium tuberculosis","score":0.9789999723434448},{"id":"https://openalex.org/keywords/staphylococcus-aureus","display_name":"Staphylococcus aureus","score":1.0},{"id":"https://openalex.org/keywords/antibiotic-resistance","display_name":"antibiotic resistance","score":0.6869999766349792},{"id":"https://openalex.org/keywords/central-carbon-metabolism","display_name":"central carbon metabolism","score":0.6759999990463257}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8116884231567383},{"id":"https://openalex.org/C142316359","wikidata":"https://www.wikidata.org/wiki/Q5967009","display_name":"Indigo","level":2,"score":0.7577483654022217},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.660181999206543},{"id":"https://openalex.org/C501593827","wikidata":"https://www.wikidata.org/wiki/Q12187","display_name":"Antibiotics","level":2,"score":0.5829684734344482},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.575398325920105},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.534881591796875},{"id":"https://openalex.org/C2777975735","wikidata":"https://www.wikidata.org/wiki/Q130971","display_name":"Mycobacterium tuberculosis","level":3,"score":0.5333267450332642},{"id":"https://openalex.org/C2777383412","wikidata":"https://www.wikidata.org/wiki/Q4770891","display_name":"Antagonism","level":3,"score":0.44316548109054565},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3273574411869049},{"id":"https://openalex.org/C89423630","wikidata":"https://www.wikidata.org/wiki/Q7193","display_name":"Microbiology","level":1,"score":0.31941425800323486},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.22453033924102783},{"id":"https://openalex.org/C2781069245","wikidata":"https://www.wikidata.org/wiki/Q12204","display_name":"Tuberculosis","level":2,"score":0.19320237636566162},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.18926987051963806},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C153349607","wikidata":"https://www.wikidata.org/wiki/Q36649","display_name":"Visual arts","level":1,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C142362112","wikidata":"https://www.wikidata.org/wiki/Q735","display_name":"Art","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004359","descriptor_name":"Drug Therapy, Combination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D013211","descriptor_name":"Staphylococcus aureus","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D013211","descriptor_name":"Staphylococcus aureus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.15252/msb.20156777","doi":"https://doi.org/10.15252/msb.20156777","is_oa":true,"landing_page_url":"https://doi.org/10.15252/msb.20156777","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.15252/msb.20156777","source":{"id":"https://openalex.org/S200893805","display_name":"Molecular Systems Biology","issn_l":"1744-4292","issn":["1744-4292"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1"],"host_organization":"https://openalex.org/P4310319965","host_organization_name":"Springer Nature","host_organization_lineage":["https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Nature"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular Systems Biology","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:5289223","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5289223","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,"listed_in":[],"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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Mol Syst Biol","raw_type":"Text"},{"id":"pmid:27222539","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27222539","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,"listed_in":[],"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":"Molecular systems biology","raw_type":"Journal Article"},{"id":"pmh:oai:research.sabanciuniv.edu:31308","doi":null,"is_oa":false,"landing_page_url":"https://research.sabanciuniv.edu/id/eprint/31308/1/pub2.pdf","pdf_url":"https://research.sabanciuniv.edu/id/eprint/31308/1/pub2.pdf","source":{"id":"https://openalex.org/S4306402254","display_name":"Sabanci University","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I134235054","host_organization_name":"Sabanc\u0131 \u00dcniversitesi","host_organization_lineage":["https://openalex.org/I134235054"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Article"},{"id":"pmh:oai:dash.harvard.edu:1/31731667","doi":null,"is_oa":true,"landing_page_url":"http://nrs.harvard.edu/urn-3:HUL.InstRepos:31731667","pdf_url":null,"source":{"id":"https://openalex.org/S4306401540","display_name":"Digital Access to Scholarship at Harvard (DASH) (Harvard University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I136199984","host_organization_name":"Harvard University","host_organization_lineage":["https://openalex.org/I136199984"],"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":"","raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:17f3a9120bf541f581b79c26f0a3f9d4","doi":null,"is_oa":false,"landing_page_url":"https://doaj.org/article/17f3a9120bf541f581b79c26f0a3f9d4","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,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Molecular Systems Biology, Vol 12, Iss 5, Pp 1-12 (2016)","raw_type":"article"},{"id":"pmh:oai:dspace.mit.edu:1721.1/103527","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/1721.1/103527","pdf_url":null,"source":{"id":"https://openalex.org/S4306400425","display_name":"DSpace@MIT (Massachusetts Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I63966007","host_organization_name":"Massachusetts Institute of Technology","host_organization_lineage":["https://openalex.org/I63966007"],"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":"European Molecular Biology Organization (EMBO)","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.15252/msb.20156777","doi":"https://doi.org/10.15252/msb.20156777","is_oa":true,"landing_page_url":"https://doi.org/10.15252/msb.20156777","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.15252/msb.20156777","source":{"id":"https://openalex.org/S200893805","display_name":"Molecular Systems Biology","issn_l":"1744-4292","issn":["1744-4292"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1"],"host_organization":"https://openalex.org/P4310319965","host_organization_name":"Springer Nature","host_organization_lineage":["https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Nature"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.8199999928474426}],"study_designs":[],"awards":[{"id":"https://openalex.org/G4599128687","display_name":"Biomarkers and Mechanisms of Paucibacillary and Latent Tuberculosis","funder_award_id":"U19AI111276","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320311939","display_name":"Pershing Square Foundation","ror":"https://ror.org/04tce9s05"},{"id":"https://openalex.org/F4320314070","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142"},{"id":"https://openalex.org/F4320322628","display_name":"T\u00fcrkiye Bilimler Akademisi","ror":"https://ror.org/00aqt9352"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332349","display_name":"Society of Fellows, Harvard University","ror":null},{"id":"https://openalex.org/F4320333979","display_name":"Hansj\u00f6rg Wyss Institute for Biologically Inspired Engineering, Harvard University","ror":"https://ror.org/008cfmj78"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2404944565.pdf","grobid_xml":"https://content.openalex.org/works/W2404944565.grobid-xml"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W1518907982","https://openalex.org/W1595129450","https://openalex.org/W1965305472","https://openalex.org/W1970798262","https://openalex.org/W1982301941","https://openalex.org/W1982551127","https://openalex.org/W1991265385","https://openalex.org/W1991721421","https://openalex.org/W2003979710","https://openalex.org/W2006222270","https://openalex.org/W2006656322","https://openalex.org/W2007296377","https://openalex.org/W2010601590","https://openalex.org/W2031932867","https://openalex.org/W2033591223","https://openalex.org/W2036291018","https://openalex.org/W2039045853","https://openalex.org/W2045673103","https://openalex.org/W2048593866","https://openalex.org/W2051695178","https://openalex.org/W2052525877","https://openalex.org/W2061949512","https://openalex.org/W2075469565","https://openalex.org/W2080642200","https://openalex.org/W2085719025","https://openalex.org/W2097780578","https://openalex.org/W2099238291","https://openalex.org/W2100266438","https://openalex.org/W2108098152","https://openalex.org/W2108433768","https://openalex.org/W2112396377","https://openalex.org/W2115049154","https://openalex.org/W2117087393","https://openalex.org/W2118217667","https://openalex.org/W2123974374","https://openalex.org/W2124010765","https://openalex.org/W2129026291","https://openalex.org/W2140595402","https://openalex.org/W2143400953","https://openalex.org/W2147794687","https://openalex.org/W2149579582","https://openalex.org/W2154400082","https://openalex.org/W2155626151","https://openalex.org/W2209382794","https://openalex.org/W2335854816","https://openalex.org/W4214754383"],"related_works":["https://openalex.org/W2902781413","https://openalex.org/W2943226553","https://openalex.org/W2907559772","https://openalex.org/W4386978152","https://openalex.org/W2907785371","https://openalex.org/W2987076930","https://openalex.org/W4286587827","https://openalex.org/W4220754967","https://openalex.org/W7135079094","https://openalex.org/W4404729760"],"abstract_inverted_index":{"Combination":[0],"antibiotic":[1,50,105],"therapies":[2,145],"are":[3,102,112],"being":[4],"increasingly":[5],"used":[6],"in":[7,57,85,122,146,153],"the":[8,18,29,63,109,123,132,140],"clinic":[9],"to":[10,48],"enhance":[11],"potency":[12],"and":[13,25,71,73,96,128],"counter":[14],"drug":[15],"resistance.":[16],"However,":[17],"large":[19],"search":[20],"space":[21],"of":[22,31,65,82,94,104,142],"candidate":[23],"drugs":[24],"dosage":[26],"regimes":[27],"makes":[28],"identification":[30],"effective":[32,143],"combinations":[33,51],"highly":[34],"challenging.":[35],"Here,":[36],"we":[37,117],"present":[38],"a":[39,91],"computational":[40],"approach":[41],"called":[42],"INDIGO,":[43],"which":[44],"uses":[45],"chemogenomics":[46,151],"data":[47,152],"predict":[49],"that":[52,101,111],"interact":[53],"synergistically":[54],"or":[55],"antagonistically":[56],"inhibiting":[58],"bacterial":[59,124],"growth.":[60],"INDIGO":[61,135,137],"quantifies":[62],"influence":[64],"individual":[66],"chemical-genetic":[67],"interactions":[68,110],"on":[69,79],"synergy":[70],"antagonism":[72],"significantly":[74],"outperforms":[75],"existing":[76],"approaches":[77],"based":[78],"experimental":[80],"evaluation":[81],"novel":[83],"predictions":[84],"Escherichia":[86],"coli":[87,134],"Our":[88],"analysis":[89],"revealed":[90],"core":[92],"set":[93],"genes":[95],"pathways":[97],"(e.g.":[98],"central":[99],"metabolism)":[100],"predictive":[103],"interactions.":[106],"By":[107],"identifying":[108],"associated":[113],"with":[114],"orthologous":[115],"genes,":[116],"successfully":[118],"estimated":[119],"drug-interaction":[120],"outcomes":[121],"pathogens":[125,148],"Mycobacterium":[126],"tuberculosis":[127],"Staphylococcus":[129],"aureus,":[130],"using":[131],"E.":[133],"model.":[136],"thus":[138],"enables":[139],"discovery":[141],"combination":[144],"less-studied":[147],"by":[149],"leveraging":[150],"model":[154],"organisms.":[155]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":11},{"year":2020,"cited_by_count":9},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":12},{"year":2017,"cited_by_count":17},{"year":2016,"cited_by_count":3}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}
