{"id":"https://openalex.org/W2137925691","doi":"https://doi.org/10.1093/bioinformatics/btp287","title":"MetNetAligner: a web service tool for metabolic network alignments","display_name":"MetNetAligner: a web service tool for metabolic network alignments","publication_year":2009,"publication_date":"2009-05-04","ids":{"openalex":"https://openalex.org/W2137925691","doi":"https://doi.org/10.1093/bioinformatics/btp287","mag":"2137925691","pmid":"https://pubmed.ncbi.nlm.nih.gov/19414533"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp287","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp287","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5068224540","display_name":"Qiong Cheng","orcid":null},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Qiong Cheng","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007378854","display_name":"Robert W. Harrison","orcid":"https://orcid.org/0000-0003-2449-1214"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robert Harrison","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072751459","display_name":"Alex Zelikovsky","orcid":"https://orcid.org/0000-0003-4424-4691"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alexander Zelikovsky","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA","institution_ids":["https://openalex.org/I181565077"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.7801,"has_fulltext":false,"cited_by_count":26,"citation_normalized_percentile":{"value":0.8462288,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"25","issue":"15","first_page":"1989","last_page":"1990"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9617000222206116,"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":0.9617000222206116,"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":0.01769999973475933,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.002400000113993883,"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":0.7626014351844788},{"id":"https://openalex.org/keywords/web-service","display_name":"Web service","score":0.5695674419403076},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5645819306373596},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.5494458675384521},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5326979160308838},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.47569072246551514},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.4708140790462494},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.45569127798080444},{"id":"https://openalex.org/keywords/directed-acyclic-graph","display_name":"Directed acyclic graph","score":0.44321632385253906},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.41557085514068604},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.3317490816116333},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.31790295243263245},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.17655855417251587},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.17160943150520325},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15578654408454895},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.1519201397895813}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7626014351844788},{"id":"https://openalex.org/C35578498","wikidata":"https://www.wikidata.org/wiki/Q193424","display_name":"Web service","level":2,"score":0.5695674419403076},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5645819306373596},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.5494458675384521},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5326979160308838},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.47569072246551514},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.4708140790462494},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.45569127798080444},{"id":"https://openalex.org/C74197172","wikidata":"https://www.wikidata.org/wiki/Q1195339","display_name":"Directed acyclic graph","level":2,"score":0.44321632385253906},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.41557085514068604},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.3317490816116333},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.31790295243263245},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.17655855417251587},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.17160943150520325},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15578654408454895},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.1519201397895813},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","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":"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":2,"locations":[{"id":"doi:10.1093/bioinformatics/btp287","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp287","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19414533","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19414533","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Partnerships for the goals","score":0.4699999988079071,"id":"https://metadata.un.org/sdg/17"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":12,"referenced_works":["https://openalex.org/W1970737407","https://openalex.org/W1984249061","https://openalex.org/W2068306188","https://openalex.org/W2100438221","https://openalex.org/W2121773288","https://openalex.org/W2132185146","https://openalex.org/W2155331065","https://openalex.org/W2162250416","https://openalex.org/W6643098017","https://openalex.org/W6675077830","https://openalex.org/W6679230876","https://openalex.org/W6683439225"],"related_works":["https://openalex.org/W1986086402","https://openalex.org/W2062517126","https://openalex.org/W4248817909","https://openalex.org/W4367048510","https://openalex.org/W2369714467","https://openalex.org/W2374719812","https://openalex.org/W2892146921","https://openalex.org/W2145275146","https://openalex.org/W3102830430","https://openalex.org/W2020100607"],"abstract_inverted_index":{"SUMMARY:":[0],"The":[1,80],"accumulation":[2],"of":[3,17,21,54,78],"high-throughput":[4],"genomic,":[5],"proteomic":[6],"and":[7,15,31,57,70,74,92,107],"metabolical":[8],"data":[9,140],"allows":[10],"for":[11,65],"increasingly":[12],"accurate":[13],"modeling":[14],"reconstruction":[16],"metabolic":[18,47],"networks.":[19],"Alignment":[20],"the":[22,40,52,58],"reconstructed":[23],"networks":[24],"can":[25,62],"help":[26],"to":[27,124],"catch":[28],"model":[29],"inconsistencies":[30],"infer":[32],"missing":[33],"elements.":[34],"In":[35],"this":[36],"note,":[37],"we":[38],"present":[39],"web":[41],"service":[42],"tool":[43,81],"MetNetAligner":[44,130],"which":[45,102,111],"aligns":[46],"networks,":[48],"taking":[49],"in":[50],"account":[51],"similarity":[53,106],"network":[55],"topology":[56],"enzymes'":[59],"functions.":[60],"It":[61,94],"be":[63],"used":[64],"predicting":[66],"unknown":[67],"pathways,":[68],"comparing":[69],"finding":[71],"conserved":[72],"patterns":[73],"resolving":[75],"ambiguous":[76],"identification":[77],"enzymes.":[79],"supports":[82],"several":[83],"alignment":[84],"options":[85],"including":[86],"allowing":[87],"or":[88],"forbidding":[89],"enzyme":[90],"deletion":[91],"insertion.":[93],"is":[95,131],"based":[96],"on":[97],"a":[98,108,117],"novel":[99],"scoring":[100],"scheme":[101],"measures":[103],"enzyme-to-enzyme":[104],"functional":[105],"fast":[109],"algorithm":[110],"efficiently":[112],"finds":[113],"optimal":[114],"mappings":[115],"from":[116],"directed":[118,127],"graph":[119],"with":[120],"restricted":[121],"cyclic":[122],"structure":[123],"an":[125],"arbitrary":[126],"graph.":[128],"AVAILABILITY:":[129],"available":[132,142],"as":[133],"web-server":[134],"at:":[135],"http://alla.cs.gsu.edu:8080/MinePW/pages/gmapping/GMMain.html.":[136],"SUPPLEMENTARY":[137],"INFORMATION:":[138],"Supplementary":[139],"are":[141],"at":[143],"Bioinformatics":[144],"online.":[145]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":4}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
