{"id":"https://openalex.org/W4236875018","doi":"https://doi.org/10.1093/bib/bbv079","title":"Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology","display_name":"Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology","publication_year":2015,"publication_date":"2015-10-10","ids":{"openalex":"https://openalex.org/W4236875018","doi":"https://doi.org/10.1093/bib/bbv079","pmid":"https://pubmed.ncbi.nlm.nih.gov/26454094"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbv079","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbv079","pdf_url":"https://academic.oup.com/bib/article-pdf/17/5/877/17485679/bbv079.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/17/5/877/17485679/bbv079.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5082071104","display_name":"Peter D. Karp","orcid":"https://orcid.org/0000-0002-5876-6418"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":true,"raw_author_name":"Peter D. Karp","raw_affiliation_strings":["Peter D. Karp is the Director of the Bioinformatics Research Group at SRI International. He received the PhD degree in Computer Science from Stanford University. SRI International is a multi-disciplinary non-profit research institute headquartered in the San Francisco area","Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Peter D. Karp is the Director of the Bioinformatics Research Group at SRI International. He received the PhD degree in Computer Science from Stanford University. SRI International is a multi-disciplinary non-profit research institute headquartered in the San Francisco area","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053894822","display_name":"Mario Latendresse","orcid":"https://orcid.org/0000-0002-6292-0158"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Mario Latendresse","raw_affiliation_strings":["Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015212276","display_name":"Suzanne Paley","orcid":"https://orcid.org/0000-0001-5763-8935"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Suzanne M. Paley","raw_affiliation_strings":["Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007704760","display_name":"Markus Krummenacker","orcid":"https://orcid.org/0000-0002-2546-3007"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Markus Krummenacker","raw_affiliation_strings":["Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044230509","display_name":"Quang Ong","orcid":"https://orcid.org/0000-0003-3490-3892"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Quang D. Ong","raw_affiliation_strings":["Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006710775","display_name":"Richard Billington","orcid":"https://orcid.org/0000-0001-7288-8916"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I2799286240","display_name":"Burlington College","ror":"https://ror.org/016j6dw22","country_code":"US","type":"education","lineage":["https://openalex.org/I2799286240"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Richard Billington","raw_affiliation_strings":["Richard Billington received a MS from the University of Pennsylvania in Computer and Information Science. He is a Senior Software Developer at SRI","Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Richard Billington received a MS from the University of Pennsylvania in Computer and Information Science. He is a Senior Software Developer at SRI","institution_ids":["https://openalex.org/I2799286240"]},{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047592210","display_name":"Anamika Kothari","orcid":null},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210121966","display_name":"Veterinary & Animal Husbandry","ror":"https://ror.org/0352b7b72","country_code":"IN","type":"government","lineage":["https://openalex.org/I4210121966"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Anamika Kothari","raw_affiliation_strings":["Anamika Kothari is a Scientific Database Curator at SRI International. She holds a graduate Degree in Chemistry and Biochemistry, from Mumbai University, India","Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Anamika Kothari is a Scientific Database Curator at SRI International. She holds a graduate Degree in Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I4210121966"]},{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091668355","display_name":"Daniel Weaver","orcid":"https://orcid.org/0000-0002-2906-3019"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I173268674","display_name":"Texas A&M University System","ror":"https://ror.org/0034eay46","country_code":"US","type":"education","lineage":["https://openalex.org/I173268674"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Daniel Weaver","raw_affiliation_strings":["Daniel Weaver is a systems biologist and holds a PhD in Biophysics from the University of Michigan. His research interests focus on cell metabolism and immune activity in the human immune system, and more generally on systems biology","Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Daniel Weaver is a systems biologist and holds a PhD in Biophysics from the University of Michigan. His research interests focus on cell metabolism and immune activity in the human immune system, and more generally on systems biology","institution_ids":["https://openalex.org/I173268674"]},{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100774742","display_name":"Thomas Lee","orcid":"https://orcid.org/0000-0001-9283-4659"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I88874673","display_name":"Thomas University","ror":"https://ror.org/01p18bt48","country_code":"US","type":"education","lineage":["https://openalex.org/I88874673"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Thomas Lee","raw_affiliation_strings":["Thomas Lee is a Senior Research Engineer at SRI International. Thomas has a BS in Computer Science from the University of Nebraska and a MS in Computer Science from the University of Wisconsin; his research interests include machine learning, intelligent control, planning and scheduling","Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Thomas Lee is a Senior Research Engineer at SRI International. Thomas has a BS in Computer Science from the University of Nebraska and a MS in Computer Science from the University of Wisconsin; his research interests include machine learning, intelligent control, planning and scheduling","institution_ids":["https://openalex.org/I88874673"]},{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016728461","display_name":"Pallavi Subhraveti","orcid":null},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Pallavi Subhraveti","raw_affiliation_strings":["Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064954416","display_name":"Aaron Spaulding","orcid":"https://orcid.org/0000-0001-9727-6756"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Aaron Spaulding","raw_affiliation_strings":["Aaron Spaulding is a Senior Computer Scientist and Interaction Designer at SRI s Artificial Intelligence Center, working in the intersection of design, user experience, and artificial intelligence. Mr. Spaulding holds a Masters of Science Degree in Human-Computer Interaction from Carnegie Mellon University","Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Aaron Spaulding is a Senior Computer Scientist and Interaction Designer at SRI s Artificial Intelligence Center, working in the intersection of design, user experience, and artificial intelligence. Mr. Spaulding holds a Masters of Science Degree in Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110621263","display_name":"Carol A. Fulcher","orcid":null},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Carol Fulcher","raw_affiliation_strings":["Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011903148","display_name":"Ingrid M. Keseler","orcid":"https://orcid.org/0000-0003-1738-6117"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Ingrid M. Keseler","raw_affiliation_strings":["Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044919501","display_name":"Ron Caspi","orcid":"https://orcid.org/0000-0002-6113-3590"},"institutions":[{"id":"https://openalex.org/I1298353152","display_name":"SRI International","ror":"https://ror.org/05s570m15","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1298353152"]},{"id":"https://openalex.org/I150209017","display_name":"Scripps Institution of Oceanography","ror":"https://ror.org/04v7hvq31","country_code":"US","type":"facility","lineage":["https://openalex.org/I150209017","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I169877490","display_name":"University of Mumbai","ror":"https://ror.org/032hdk172","country_code":"IN","type":"education","lineage":["https://openalex.org/I169877490"]},{"id":"https://openalex.org/I4210128676","display_name":"Human Computer Interaction (Switzerland)","ror":"https://ror.org/036dv6j71","country_code":"CH","type":"company","lineage":["https://openalex.org/I4210128676"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["CH","IN","US"],"is_corresponding":false,"raw_author_name":"Ron Caspi","raw_affiliation_strings":["Bioinformatics Research Group at SRI International","Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","Chemistry and Biochemistry, from Mumbai University, India","Computer Science from Stanford University. SRI International","Human-Computer Interaction from Carnegie Mellon University","Scripps Institution of Oceanography, La Jolla, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Group at SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I4210148697"]},{"raw_affiliation_string":"Bioinformatics Research Group, SRI International 333 Ravenswood Ave, Menlo Park, CA 94025, USA","institution_ids":["https://openalex.org/I1298353152"]},{"raw_affiliation_string":"Chemistry and Biochemistry, from Mumbai University, India","institution_ids":["https://openalex.org/I169877490"]},{"raw_affiliation_string":"Computer Science from Stanford University. SRI International","institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Human-Computer Interaction from Carnegie Mellon University","institution_ids":["https://openalex.org/I4210128676"]},{"raw_affiliation_string":"Scripps Institution of Oceanography, La Jolla, CA","institution_ids":["https://openalex.org/I150209017"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5082071104"],"corresponding_institution_ids":["https://openalex.org/I1298353152","https://openalex.org/I150209017","https://openalex.org/I169877490","https://openalex.org/I4210128676","https://openalex.org/I4210148697","https://openalex.org/I97018004"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":10.1996,"has_fulltext":true,"cited_by_count":291,"citation_normalized_percentile":{"value":0.98843272,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"17","issue":"5","first_page":"877","last_page":"890"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":1.0,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":1.0,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9966999888420105,"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/T10171","display_name":"Biofuel production and bioconversion","score":0.9916999936103821,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6420912742614746},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6095355153083801},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.5775260925292969},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5505375266075134},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5380449295043945},{"id":"https://openalex.org/keywords/informatics","display_name":"Informatics","score":0.490462988615036},{"id":"https://openalex.org/keywords/metabolic-pathway","display_name":"Metabolic pathway","score":0.47677069902420044},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.45683497190475464},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.4334193170070648},{"id":"https://openalex.org/keywords/comparative-genomics","display_name":"Comparative genomics","score":0.43138790130615234},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.4293564558029175},{"id":"https://openalex.org/keywords/computational-genomics","display_name":"Computational genomics","score":0.4206112325191498},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3794722557067871},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.37418776750564575},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27271631360054016},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20351994037628174},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.17412304878234863},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.13672226667404175}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6420912742614746},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6095355153083801},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.5775260925292969},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5505375266075134},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5380449295043945},{"id":"https://openalex.org/C191630685","wikidata":"https://www.wikidata.org/wiki/Q4027615","display_name":"Informatics","level":2,"score":0.490462988615036},{"id":"https://openalex.org/C192989942","wikidata":"https://www.wikidata.org/wiki/Q68685","display_name":"Metabolic pathway","level":3,"score":0.47677069902420044},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.45683497190475464},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.4334193170070648},{"id":"https://openalex.org/C105176652","wikidata":"https://www.wikidata.org/wiki/Q1147112","display_name":"Comparative genomics","level":5,"score":0.43138790130615234},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.4293564558029175},{"id":"https://openalex.org/C39238701","wikidata":"https://www.wikidata.org/wiki/Q2091816","display_name":"Computational genomics","level":5,"score":0.4206112325191498},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3794722557067871},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.37418776750564575},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27271631360054016},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20351994037628174},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.17412304878234863},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.13672226667404175},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D012985","descriptor_name":"Software Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012985","descriptor_name":"Software Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012985","descriptor_name":"Software Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbv079","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbv079","pdf_url":"https://academic.oup.com/bib/article-pdf/17/5/877/17485679/bbv079.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26454094","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26454094","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:4474019","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5036846","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bib:17/5/877","is_oa":false,"landing_page_url":"http://bib.oxfordjournals.org/cgi/content/short/17/5/877","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bib/bbv079","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbv079","pdf_url":"https://academic.oup.com/bib/article-pdf/17/5/877/17485679/bbv079.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2590228324","display_name":null,"funder_award_id":"R01-GM080746","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3641404014","display_name":null,"funder_award_id":"GM75742","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G462345482","display_name":null,"funder_award_id":"R01GM075742","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G5077415591","display_name":null,"funder_award_id":"GM077678","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6777668075","display_name":null,"funder_award_id":"GM080746","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G682688612","display_name":null,"funder_award_id":"U24GM077678","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4236875018.pdf","grobid_xml":"https://content.openalex.org/works/W4236875018.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W1502649855","https://openalex.org/W1835571316","https://openalex.org/W1964189732","https://openalex.org/W1966408199","https://openalex.org/W1966614672","https://openalex.org/W1969709265","https://openalex.org/W1975147762","https://openalex.org/W1975927396","https://openalex.org/W1984852783","https://openalex.org/W1991056282","https://openalex.org/W2015986985","https://openalex.org/W2019240775","https://openalex.org/W2036496916","https://openalex.org/W2042067428","https://openalex.org/W2050624025","https://openalex.org/W2085993965","https://openalex.org/W2096144498","https://openalex.org/W2096608686","https://openalex.org/W2098676247","https://openalex.org/W2100525485","https://openalex.org/W2103017472","https://openalex.org/W2112101310","https://openalex.org/W2113024448","https://openalex.org/W2117364474","https://openalex.org/W2118258530","https://openalex.org/W2122093325","https://openalex.org/W2124450302","https://openalex.org/W2128601422","https://openalex.org/W2132926880","https://openalex.org/W2133298156","https://openalex.org/W2134221731","https://openalex.org/W2139135429","https://openalex.org/W2145921127","https://openalex.org/W2147472054","https://openalex.org/W2168465568","https://openalex.org/W2170806980","https://openalex.org/W2482371382","https://openalex.org/W4230770774","https://openalex.org/W4236875018","https://openalex.org/W6641813876"],"related_works":["https://openalex.org/W189065216","https://openalex.org/W2137003216","https://openalex.org/W1968252650","https://openalex.org/W2366590297","https://openalex.org/W2510847435","https://openalex.org/W2045976996","https://openalex.org/W2024899437","https://openalex.org/W2281531600","https://openalex.org/W1574716514","https://openalex.org/W2102261400"],"abstract_inverted_index":{"Pathway":[0,51,77,160],"Tools":[1,52,78],"is":[2],"a":[3,8,20,25,65],"bioinformatics":[4],"software":[5,14],"environment":[6],"with":[7],"broad":[9],"set":[10],"of":[11,43,68,95,100,105,108,121,129,133,140,163],"capabilities.":[12],"The":[13],"provides":[15,54],"genome-informatics":[16],"tools":[17],"such":[18,35,57],"as":[19,36,58],"genome":[21,114],"browser,":[22],"sequence":[23],"alignments,":[24,131],"genome-variant":[26],"analyzer":[27],"and":[28,47,63,98,116,125,132,135,138,142],"comparative-genomics":[29],"operations.":[30],"It":[31],"offers":[32],"metabolic-informatics":[33],"tools,":[34,56],"metabolic":[37,40,48,89,91],"reconstruction,":[38],"quantitative":[39],"modeling,":[41,90],"prediction":[42],"reaction":[44],"atom":[45,96],"mappings":[46,97],"route":[49,92],"search.":[50],"also":[53],"regulatory-informatics":[55],"the":[59,74,80,149],"ability":[60],"to":[61],"represent":[62],"visualize":[64],"wide":[66],"range":[67],"regulatory":[69],"interactions.":[70],"This":[71],"article":[72],"outlines":[73],"advances":[75],"in":[76,79],"past":[81],"5":[82],"years.":[83],"Major":[84],"additions":[85],"include":[86],"components":[87],"for":[88,110,113,117,168],"search,":[93],"computation":[94],"estimation":[99],"compound":[101],"Gibbs":[102],"free":[103],"energies":[104],"formation;":[106],"addition":[107],"editors":[109],"signaling":[111,134],"pathways,":[112],"sequences":[115],"cellular":[118],"architecture;":[119],"storage":[120],"gene":[122],"essentiality":[123],"data":[124],"phenotype":[126],"data;":[127],"display":[128],"multiple":[130],"electron-transport":[136],"pathways;":[137],"development":[139],"Python":[141],"web-services":[143],"application":[144],"programming":[145],"interfaces.":[146],"Scientists":[147],"around":[148],"world":[150],"have":[151],"created":[152],"more":[153],"than":[154],"9800":[155],"Pathway/Genome":[156],"Databases":[157],"by":[158],"using":[159],"Tools,":[161],"many":[162],"which":[164],"are":[165],"curated":[166],"databases":[167],"important":[169],"model":[170],"organisms.":[171]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":18},{"year":2023,"cited_by_count":15},{"year":2022,"cited_by_count":17},{"year":2021,"cited_by_count":47},{"year":2020,"cited_by_count":61},{"year":2019,"cited_by_count":43},{"year":2018,"cited_by_count":27},{"year":2017,"cited_by_count":31},{"year":2016,"cited_by_count":13},{"year":2015,"cited_by_count":3}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}