{"id":"https://openalex.org/W2999492436","doi":"https://doi.org/10.1186/s12859-019-3328-x","title":"Improving the organization and interactivity of metabolic pathfinding with precomputed pathways","display_name":"Improving the organization and interactivity of metabolic pathfinding with precomputed pathways","publication_year":2020,"publication_date":"2020-01-10","ids":{"openalex":"https://openalex.org/W2999492436","doi":"https://doi.org/10.1186/s12859-019-3328-x","mag":"2999492436","pmid":"https://pubmed.ncbi.nlm.nih.gov/31924164"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-3328-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3328-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3328-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3328-x","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070262342","display_name":"Sarah M. Kim","orcid":"https://orcid.org/0000-0001-7627-1489"},"institutions":[{"id":"https://openalex.org/I74775410","display_name":"Rice University","ror":"https://ror.org/008zs3103","country_code":"US","type":"education","lineage":["https://openalex.org/I74775410"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sarah M. Kim","raw_affiliation_strings":["Department of Computer Science, Rice University, Houston, Texas, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Rice University, Houston, Texas, USA","institution_ids":["https://openalex.org/I74775410"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102729808","display_name":"Matthew I. Pe\u00f1a","orcid":"https://orcid.org/0000-0002-4322-7462"},"institutions":[{"id":"https://openalex.org/I74775410","display_name":"Rice University","ror":"https://ror.org/008zs3103","country_code":"US","type":"education","lineage":["https://openalex.org/I74775410"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matthew I. Pe\u00f1a","raw_affiliation_strings":["Department of BioSciences, Rice University, Houston, Texas, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of BioSciences, Rice University, Houston, Texas, USA","institution_ids":["https://openalex.org/I74775410"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061397940","display_name":"Mark Moll","orcid":"https://orcid.org/0000-0002-0451-2797"},"institutions":[{"id":"https://openalex.org/I74775410","display_name":"Rice University","ror":"https://ror.org/008zs3103","country_code":"US","type":"education","lineage":["https://openalex.org/I74775410"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Mark Moll","raw_affiliation_strings":["Department of Computer Science, Rice University, Houston, Texas, USA. mmoll@rice.edu","Department of Computer Science, Rice University, Houston, Texas, USA"],"raw_orcid":"https://orcid.org/0000-0002-0451-2797","affiliations":[{"raw_affiliation_string":"Department of Computer Science, Rice University, Houston, Texas, USA. mmoll@rice.edu","institution_ids":["https://openalex.org/I74775410"]},{"raw_affiliation_string":"Department of Computer Science, Rice University, Houston, Texas, USA","institution_ids":["https://openalex.org/I74775410"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038858646","display_name":"George N. Bennett","orcid":"https://orcid.org/0000-0003-1408-8915"},"institutions":[{"id":"https://openalex.org/I74775410","display_name":"Rice University","ror":"https://ror.org/008zs3103","country_code":"US","type":"education","lineage":["https://openalex.org/I74775410"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"George N. Bennett","raw_affiliation_strings":["Department of BioSciences, Rice University, Houston, Texas, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of BioSciences, Rice University, Houston, Texas, USA","institution_ids":["https://openalex.org/I74775410"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067205988","display_name":"Lydia E. Kavraki","orcid":"https://orcid.org/0000-0003-0699-8038"},"institutions":[{"id":"https://openalex.org/I74775410","display_name":"Rice University","ror":"https://ror.org/008zs3103","country_code":"US","type":"education","lineage":["https://openalex.org/I74775410"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lydia E. Kavraki","raw_affiliation_strings":["Department of Computer Science, Rice University, Houston, Texas, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Rice University, Houston, Texas, USA","institution_ids":["https://openalex.org/I74775410"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5061397940"],"corresponding_institution_ids":["https://openalex.org/I74775410"],"apc_list":{"value":2170,"currency":"USD","value_usd":2170},"apc_paid":{"value":2170,"currency":"USD","value_usd":2170},"fwci":0.5292,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.60417642,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":96},"biblio":{"volume":"21","issue":"1","first_page":"13","last_page":"13"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9853000044822693,"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/T11882","display_name":"Plant biochemistry and biosynthesis","score":0.9847999811172485,"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/computer-science","display_name":"Computer science","score":0.6840245127677917},{"id":"https://openalex.org/keywords/pathfinding","display_name":"Pathfinding","score":0.6815231442451477},{"id":"https://openalex.org/keywords/metabolic-pathway","display_name":"Metabolic pathway","score":0.6389027833938599},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.496994286775589},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.44964301586151123},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2347729504108429},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.17134249210357666},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.1493324637413025},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14287030696868896},{"id":"https://openalex.org/keywords/shortest-path-problem","display_name":"Shortest path problem","score":0.11033982038497925}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6840245127677917},{"id":"https://openalex.org/C25321074","wikidata":"https://www.wikidata.org/wiki/Q1969601","display_name":"Pathfinding","level":4,"score":0.6815231442451477},{"id":"https://openalex.org/C192989942","wikidata":"https://www.wikidata.org/wiki/Q68685","display_name":"Metabolic pathway","level":3,"score":0.6389027833938599},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.496994286775589},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44964301586151123},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2347729504108429},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.17134249210357666},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.1493324637413025},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14287030696868896},{"id":"https://openalex.org/C22590252","wikidata":"https://www.wikidata.org/wiki/Q1058754","display_name":"Shortest path problem","level":3,"score":0.11033982038497925},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019289","descriptor_name":"Pyruvic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019289","descriptor_name":"Pyruvic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019289","descriptor_name":"Pyruvic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019344","descriptor_name":"Lactic Acid","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-019-3328-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3328-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3328-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31924164","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31924164","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":"BMC bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:osti.gov:1802666","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1802666","pdf_url":"https://www.osti.gov/servlets/purl/1802666","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:6954563","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6954563","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:0d9ee914348c4233a4e69f460bcc183f","is_oa":false,"landing_page_url":"https://doaj.org/article/0d9ee914348c4233a4e69f460bcc183f","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-22 (2020)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-3328-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3328-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3328-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2339197327","display_name":"UNDERSTANDING REDOX PROPORTIONING THROUGH FERREDOXINS, LOW POTENTIAL IRON-SULFUR PROTEINS ACTING AS ELECTRICAL HUBS TO CONTROL METABOLISM","funder_award_id":"DESC0014462","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3930899242","display_name":null,"funder_award_id":"1843556","funder_id":"https://openalex.org/F4320337390","funder_display_name":"Division of Chemical, Bioengineering, Environmental, and Transport Systems"},{"id":"https://openalex.org/G4474229680","display_name":"ABI Innovation: Mining Metabolic and Enzyme Databases for the Composition of Non-Canonical Pathways","funder_award_id":"1262491","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6433662533","display_name":null,"funder_award_id":"CBET\u20101843556","funder_id":"https://openalex.org/F4320337390","funder_display_name":"Division of Chemical, Bioengineering, Environmental, and Transport Systems"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320337390","display_name":"Division of Chemical, Bioengineering, Environmental, and Transport Systems","ror":"https://ror.org/0471zv972"},{"id":"https://openalex.org/F4320337398","display_name":"Division of Biological Infrastructure","ror":"https://ror.org/04qn9mx93"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2999492436.pdf","grobid_xml":"https://content.openalex.org/works/W2999492436.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W46659105","https://openalex.org/W1925105768","https://openalex.org/W1968286256","https://openalex.org/W1969404643","https://openalex.org/W1990226486","https://openalex.org/W2018045523","https://openalex.org/W2021688572","https://openalex.org/W2022741035","https://openalex.org/W2025060809","https://openalex.org/W2030555543","https://openalex.org/W2087007556","https://openalex.org/W2089121522","https://openalex.org/W2102850238","https://openalex.org/W2103708054","https://openalex.org/W2112101310","https://openalex.org/W2113531097","https://openalex.org/W2113816218","https://openalex.org/W2120550036","https://openalex.org/W2129106849","https://openalex.org/W2131504364","https://openalex.org/W2132207273","https://openalex.org/W2146651144","https://openalex.org/W2152776677","https://openalex.org/W2159482845","https://openalex.org/W2159675211","https://openalex.org/W2164538999","https://openalex.org/W2165612309","https://openalex.org/W2166323054","https://openalex.org/W2166927282","https://openalex.org/W2169517653","https://openalex.org/W2171079088","https://openalex.org/W2181121096","https://openalex.org/W2238009938","https://openalex.org/W2337774877","https://openalex.org/W2466795701","https://openalex.org/W2508189011","https://openalex.org/W2559588208","https://openalex.org/W2569419820","https://openalex.org/W2612989432","https://openalex.org/W2754362260","https://openalex.org/W2767812861","https://openalex.org/W2768960806","https://openalex.org/W2797546805","https://openalex.org/W2907337795","https://openalex.org/W2951187726","https://openalex.org/W4294216483","https://openalex.org/W7011535411"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W4285687848","https://openalex.org/W4289994039","https://openalex.org/W2240526870","https://openalex.org/W3100156731","https://openalex.org/W2623016776","https://openalex.org/W1967962134","https://openalex.org/W3128311703"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,244,338],"rapid":[2],"growth":[3],"of":[4,12,19,40,50,57,67,74,128,132,139,149,174,183,201,212,221,239,246,276,279,301,307,335,341,350],"available":[5],"knowledge":[6],"on":[7,104],"metabolic":[8,108,114,191,323,342],"processes":[9],"across":[10,84],"thousands":[11,49],"species":[13],"continues":[14],"to":[15,63,125,163,195,248,257,285,330,346],"expand":[16],"the":[17,38,54,64,101,106,137,176,207,213,240,268,277,299,313],"possibilities":[18],"producing":[20],"chemicals":[21],"by":[22,254],"combining":[23],"pathways":[24,186,251,281,289,306,343],"found":[25,206,236],"in":[26,60,81,290,297,316],"different":[27],"species.":[28],"Several":[29],"computational":[30],"search":[31,118,228],"algorithms":[32],"have":[33],"been":[34],"developed":[35,124],"for":[36,113,210,265],"automating":[37],"identification":[39],"possible":[41,68],"heterologous":[42],"pathways;":[43],"however,":[44],"these":[45],"searches":[46,162],"may":[47],"return":[48],"pathway":[51,82,209,266,271,336],"results.":[52,337],"Although":[53],"large":[55,65],"number":[56,66,278],"results":[58,83],"are":[59,156],"part":[61],"due":[62],"compounds":[69,93],"and":[70,153,159,164,190,325],"reactions,":[71],"a":[72,110,129,144,147,218,225,274,318,331],"subset":[73],"core":[75],"reaction":[76],"modules":[77],"is":[78,344],"repeatedly":[79],"observed":[80],"multiple":[85],"searches,":[86],"suggesting":[87],"that":[88,230],"some":[89],"subpaths":[90,235],"between":[91],"common":[92,150],"were":[94,193],"more":[95],"consistently":[96],"explored":[97],"than":[98,287],"others.To":[99],"reduce":[100],"resources":[102],"spent":[103],"searching":[105],"same":[107],"space,":[109],"new":[111,269],"meta-algorithm":[112],"pathfinding,":[115],"Hub":[116],"Pathway":[117],"with":[119],"Atom":[120],"Tracking":[121],"(HPAT),":[122],"was":[123,199,252],"take":[126],"advantage":[127],"precomputed":[130,222,234,319],"network":[131,148,168,321],"subpath":[133,320],"modules.":[134],"To":[135],"investigate":[136],"efficacy":[138],"this":[140,166,328],"method,":[141],"we":[142],"created":[143],"table":[145],"describing":[146],"hub":[151,167],"metabolites":[152],"how":[154,327],"they":[155],"biochemically":[157],"connected":[158],"only":[160,237],"offloaded":[161],"from":[165,188,282],"onto":[169],"an":[170],"interactive":[171,270,333],"webserver":[172],"capable":[173,200],"visualizing":[175],"resulting":[177],"pathways.":[178,204,263,352],"RESULTS:":[179],"A":[180],"test":[181,215,242,292],"set":[182,220],"nineteen":[184,214,241],"known":[185,203],"taken":[187],"literature":[189],"databases":[192],"used":[194],"evaluate":[196],"if":[197],"HPAT":[198,205,247],"identifying":[202],"exact":[208],"eleven":[211],"cases":[216],"using":[217],"diverse":[219],"subpaths,":[223],"whereas":[224],"comparable":[226],"pathfinding":[227,324],"algorithm":[229],"does":[231],"not":[232],"use":[233],"seven":[238],"cases.":[243],"capability":[245],"find":[249],"novel":[250,259],"demonstrated":[253],"its":[255],"ability":[256],"identify":[258],"3-hydroxypropanoate":[260],"(3-HP)":[261],"synthesis":[262],"As":[264],"visualization,":[267],"filters":[272],"enable":[273],"reduction":[275],"displayed":[280],"hundreds":[283],"down":[284],"less":[286],"ten":[288],"several":[291],"cases,":[293],"illustrating":[294],"their":[295],"utility":[296],"reducing":[298],"amount":[300],"presented":[302],"information":[303],"while":[304],"retaining":[305],"interest.":[308],"CONCLUSIONS:":[309],"This":[310],"work":[311],"presents":[312],"first":[314],"step":[315],"incorporating":[317],"into":[322],"demonstrates":[326],"leads":[329],"concise,":[332],"visualization":[334],"modular":[339],"nature":[340],"exploited":[345],"facilitate":[347],"efficient":[348],"discovery":[349],"alternate":[351]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":2}],"updated_date":"2026-08-28T12:50:07.497085","created_date":"2020-01-23T00:00:00"}