{"id":"https://openalex.org/W3186252474","doi":"https://doi.org/10.32614/rj-2021-064","title":"g2f as a Novel Tool to Find and Fill Gaps in Metabolic Networks","display_name":"g2f as a Novel Tool to Find and Fill Gaps in Metabolic Networks","publication_year":2021,"publication_date":"2021-01-01","ids":{"openalex":"https://openalex.org/W3186252474","doi":"https://doi.org/10.32614/rj-2021-064","mag":"3186252474"},"language":"en","primary_location":{"id":"doi:10.32614/rj-2021-064","is_oa":true,"landing_page_url":"https://doi.org/10.32614/rj-2021-064","pdf_url":"https://journal.r-project.org/archive/2021/RJ-2021-064/RJ-2021-064.pdf","source":{"id":"https://openalex.org/S2489169438","display_name":"The R Journal","issn_l":"2073-4859","issn":["2073-4859"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The R Journal","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://journal.r-project.org/archive/2021/RJ-2021-064/RJ-2021-064.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053481898","display_name":"Daniel Osorio","orcid":"https://orcid.org/0000-0003-4424-8422"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Daniel Osorio","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002531979","display_name":"Kelly Botero","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kelly Botero","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017398693","display_name":"Pinz\u00f3n Velasco Andr\u00e9s","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Andr\u00e9s,Pinz\u00f3n Velasco","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038919703","display_name":"Nicol\u00e1s Mendoza-Mej\u00eda","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Nicol\u00e1s Mendoza-Mej\u00eda","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Felipe,Rojas- Rodr\u00edguez","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Felipe,Rojas- Rodr\u00edguez","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017960386","display_name":"George E. Barreto","orcid":"https://orcid.org/0000-0002-6644-1971"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"George Barreto","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5061562222","display_name":"Janneth Gonz\u00e1lez","orcid":"https://orcid.org/0000-0003-4482-256X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Janneth Gonz\u00e1lez","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5053481898"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.09418657,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"13","issue":"2","first_page":"6","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12770","display_name":"Amino Acid Enzymes and Metabolism","score":0.989799976348877,"subfield":{"id":"https://openalex.org/subfields/1303","display_name":"Biochemistry"},"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/T12770","display_name":"Amino Acid Enzymes and Metabolism","score":0.989799976348877,"subfield":{"id":"https://openalex.org/subfields/1303","display_name":"Biochemistry"},"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/T11027","display_name":"Metabolism and Genetic Disorders","score":0.9866999983787537,"subfield":{"id":"https://openalex.org/subfields/1308","display_name":"Clinical Biochemistry"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9779999852180481,"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":0.43480557203292847},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.33829593658447266}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.43480557203292847},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.33829593658447266}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.32614/rj-2021-064","is_oa":true,"landing_page_url":"https://doi.org/10.32614/rj-2021-064","pdf_url":"https://journal.r-project.org/archive/2021/RJ-2021-064/RJ-2021-064.pdf","source":{"id":"https://openalex.org/S2489169438","display_name":"The R Journal","issn_l":"2073-4859","issn":["2073-4859"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The R Journal","raw_type":"journal-article"},{"id":"pmh:oai:digitalcommons.unl.edu:r-journal-1006","is_oa":true,"landing_page_url":"https://digitalcommons.unl.edu/r-journal/106","pdf_url":"https://digitalcommons.unl.edu/context/r-journal/article/1006/viewcontent/RJ_2021_064.pdf","source":{"id":"https://openalex.org/S4306400577","display_name":"Lincoln (University of Nebraska)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I114395901","host_organization_name":"University of Nebraska\u2013Lincoln","host_organization_lineage":["https://openalex.org/I114395901"],"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":"The R Journal","raw_type":"text"}],"best_oa_location":{"id":"doi:10.32614/rj-2021-064","is_oa":true,"landing_page_url":"https://doi.org/10.32614/rj-2021-064","pdf_url":"https://journal.r-project.org/archive/2021/RJ-2021-064/RJ-2021-064.pdf","source":{"id":"https://openalex.org/S2489169438","display_name":"The R Journal","issn_l":"2073-4859","issn":["2073-4859"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The R Journal","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3683776108","display_name":null,"funder_award_id":"20304","funder_id":"https://openalex.org/F4320325859","funder_display_name":"Pontificia Universidad Javeriana"}],"funders":[{"id":"https://openalex.org/F4320325859","display_name":"Pontificia Universidad Javeriana","ror":"https://ror.org/03etyjw28"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3186252474.pdf","grobid_xml":"https://content.openalex.org/works/W3186252474.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W1977813420","https://openalex.org/W1986656046","https://openalex.org/W2004964623","https://openalex.org/W2031993452","https://openalex.org/W2041715023","https://openalex.org/W2056305771","https://openalex.org/W2073837631","https://openalex.org/W2075715210","https://openalex.org/W2083108649","https://openalex.org/W2085966233","https://openalex.org/W2085993965","https://openalex.org/W2091940856","https://openalex.org/W2096097217","https://openalex.org/W2097852199","https://openalex.org/W2105112252","https://openalex.org/W2107459209","https://openalex.org/W2110256992","https://openalex.org/W2121514092","https://openalex.org/W2133809942","https://openalex.org/W2147719979","https://openalex.org/W2165674132","https://openalex.org/W2291465340","https://openalex.org/W2295820626","https://openalex.org/W2580505401","https://openalex.org/W2583606901","https://openalex.org/W2586955604","https://openalex.org/W2718755343","https://openalex.org/W2737180538","https://openalex.org/W2775873384","https://openalex.org/W2786078832","https://openalex.org/W2789128799","https://openalex.org/W2809336338","https://openalex.org/W2907209357","https://openalex.org/W2949418748","https://openalex.org/W2951229754","https://openalex.org/W2952117162","https://openalex.org/W4292666818"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"During":[0],"the":[1,27,38,42,62,69,73,76,97,106,125,136],"building":[2],"of":[3,31,41,75,109,127],"a":[4,93,110,116,132],"genome-scale":[5],"metabolic":[6],"model,":[7],"there":[8],"are":[9],"several":[10],"dead-end":[11,33,100],"metabolites":[12,34,101],"and":[13,54,102,146],"substrates":[14],"which":[15],"cannot":[16],"be":[17,79],"imported,":[18],"produced,":[19],"nor":[20],"used":[21],"by":[22],"any":[23],"reaction":[24],"incorporated":[25],"in":[26,61],"network.":[28],"The":[29,87],"presence":[30],"these":[32],"can":[35,78],"block":[36],"out":[37,81],"net":[39],"flux":[40],"objective":[43],"function":[44],"when":[45,55],"it":[46,56],"is":[47,57,141],"evaluated":[48],"through":[49],"Flux":[50],"Balance":[51],"Analysis":[52],"(FBA),":[53],"not":[58],"blocked,":[59],"bias":[60],"biological":[63],"conclusions":[64],"increase.":[65],"In":[66],"this":[67,120],"aspect,":[68],"refinement":[70],"to":[71,95],"restore":[72],"connectivity":[74],"network":[77],"carried":[80],"manually":[82],"or":[83],"using":[84,115],"computational":[85],"algorithms.":[86],"g2f":[88],"package":[89,140],"was":[90],"designed":[91],"as":[92],"tool":[94],"find":[96],"gaps":[98],"from":[99,105,135],"fill":[103],"them":[104],"stoichiometric":[107,129],"reactions":[108,114,130],"reference,":[111],"filtering":[112],"candidate":[113],"weighting":[117],"function.":[118],"Additionally,":[119],"algorithm":[121],"allows":[122],"downloading":[123],"all":[124],"sets":[126],"gene-associated":[128],"for":[131],"specific":[133],"organism":[134],"KEGG":[137],"database.":[138],"Our":[139],"compatible":[142],"with":[143],"both":[144],"4.0.0":[145],"3.6.0":[147],"R":[148],"versions.":[149]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-05-13T08:25:38.343686","created_date":"2025-10-10T00:00:00"}
