{"id":"https://openalex.org/W2131260462","doi":"https://doi.org/10.1093/bioinformatics/btp144","title":"Evolutionary construction of multiple graph alignments for the structural analysis of biomolecules","display_name":"Evolutionary construction of multiple graph alignments for the structural analysis of biomolecules","publication_year":2009,"publication_date":"2009-03-13","ids":{"openalex":"https://openalex.org/W2131260462","doi":"https://doi.org/10.1093/bioinformatics/btp144","mag":"2131260462","pmid":"https://pubmed.ncbi.nlm.nih.gov/19286830"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp144","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp144","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/16/2110/48993983/bioinformatics_25_16_2110.pdf","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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/25/16/2110/48993983/bioinformatics_25_16_2110.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5019483146","display_name":"Thomas Fober","orcid":null},"institutions":[{"id":"https://openalex.org/I161103922","display_name":"Philipps University of Marburg","ror":"https://ror.org/01rdrb571","country_code":"DE","type":"education","lineage":["https://openalex.org/I161103922"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Thomas Fober","raw_affiliation_strings":["1 Department of Mathematics and Computer Science and 2Department of Pharmaceutical Chemistry, Philipps-Universit\u00e4t Marburg, Marburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Mathematics and Computer Science and 2Department of Pharmaceutical Chemistry, Philipps-Universit\u00e4t Marburg, Marburg, Germany","institution_ids":["https://openalex.org/I161103922"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065824482","display_name":"Marco Mernberger","orcid":null},"institutions":[{"id":"https://openalex.org/I161103922","display_name":"Philipps University of Marburg","ror":"https://ror.org/01rdrb571","country_code":"DE","type":"education","lineage":["https://openalex.org/I161103922"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Marco Mernberger","raw_affiliation_strings":["1 Department of Mathematics and Computer Science and 2Department of Pharmaceutical Chemistry, Philipps-Universit\u00e4t Marburg, Marburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Mathematics and Computer Science and 2Department of Pharmaceutical Chemistry, Philipps-Universit\u00e4t Marburg, Marburg, Germany","institution_ids":["https://openalex.org/I161103922"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005420915","display_name":"G. Klebe","orcid":"https://orcid.org/0000-0002-4913-390X"},"institutions":[{"id":"https://openalex.org/I161103922","display_name":"Philipps University of Marburg","ror":"https://ror.org/01rdrb571","country_code":"DE","type":"education","lineage":["https://openalex.org/I161103922"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Gerhard Klebe","raw_affiliation_strings":["1 Department of Mathematics and Computer Science and 2Department of Pharmaceutical Chemistry, Philipps-Universit\u00e4t Marburg, Marburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Mathematics and Computer Science and 2Department of Pharmaceutical Chemistry, Philipps-Universit\u00e4t Marburg, Marburg, Germany","institution_ids":["https://openalex.org/I161103922"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059439673","display_name":"Eyke H\u00fcllermeier","orcid":"https://orcid.org/0000-0002-9944-4108"},"institutions":[{"id":"https://openalex.org/I161103922","display_name":"Philipps University of Marburg","ror":"https://ror.org/01rdrb571","country_code":"DE","type":"education","lineage":["https://openalex.org/I161103922"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Eyke H\u00fcllermeier","raw_affiliation_strings":["1 Department of Mathematics and Computer Science and 2Department of Pharmaceutical Chemistry, Philipps-Universit\u00e4t Marburg, Marburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Mathematics and Computer Science and 2Department of Pharmaceutical Chemistry, Philipps-Universit\u00e4t Marburg, Marburg, Germany","institution_ids":["https://openalex.org/I161103922"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5059439673"],"corresponding_institution_ids":["https://openalex.org/I161103922"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.7551,"has_fulltext":false,"cited_by_count":28,"citation_normalized_percentile":{"value":0.84373502,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"25","issue":"16","first_page":"2110","last_page":"2117"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9968000054359436,"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":0.9968000054359436,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9965999722480774,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.994700014591217,"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":0.6520179510116577},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5650929808616638},{"id":"https://openalex.org/keywords/graph-theory","display_name":"Graph theory","score":0.4766324758529663},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3932919502258301},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.36286336183547974},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.21050310134887695},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19679197669029236},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.15066534280776978}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6520179510116577},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5650929808616638},{"id":"https://openalex.org/C88230418","wikidata":"https://www.wikidata.org/wiki/Q131476","display_name":"Graph theory","level":2,"score":0.4766324758529663},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3932919502258301},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.36286336183547974},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.21050310134887695},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19679197669029236},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.15066534280776978}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btp144","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp144","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/16/2110/48993983/bioinformatics_25_16_2110.pdf","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:19286830","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19286830","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":{"id":"doi:10.1093/bioinformatics/btp144","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp144","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/16/2110/48993983/bioinformatics_25_16_2110.pdf","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"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":40,"referenced_works":["https://openalex.org/W1547618122","https://openalex.org/W1576660662","https://openalex.org/W1847593871","https://openalex.org/W1965910641","https://openalex.org/W1973503184","https://openalex.org/W1984220047","https://openalex.org/W1988771765","https://openalex.org/W2005153862","https://openalex.org/W2023119578","https://openalex.org/W2031194866","https://openalex.org/W2042647264","https://openalex.org/W2050137450","https://openalex.org/W2066199490","https://openalex.org/W2081799029","https://openalex.org/W2084482738","https://openalex.org/W2087885007","https://openalex.org/W2096039340","https://openalex.org/W2101449937","https://openalex.org/W2102913801","https://openalex.org/W2103626206","https://openalex.org/W2106882534","https://openalex.org/W2109294083","https://openalex.org/W2110034858","https://openalex.org/W2115451817","https://openalex.org/W2125211684","https://openalex.org/W2131479089","https://openalex.org/W2136567909","https://openalex.org/W2141885858","https://openalex.org/W2146940292","https://openalex.org/W2147286743","https://openalex.org/W2165925807","https://openalex.org/W2169310183","https://openalex.org/W4210400672","https://openalex.org/W4235817903","https://openalex.org/W4242718594","https://openalex.org/W4251697274","https://openalex.org/W4251903194","https://openalex.org/W6675110608","https://openalex.org/W6678822023","https://openalex.org/W6684906827"],"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/W4385627933","https://openalex.org/W2532801570","https://openalex.org/W2480127678","https://openalex.org/W2806270048","https://openalex.org/W4310605282"],"abstract_inverted_index":{"The":[0],"concept":[1,61],"of":[2,19,32,46,51,62,69,77,87,119],"multiple":[3],"graph":[4,23],"alignment":[5],"(MGA)":[6],"has":[7],"recently":[8],"been":[9],"introduced":[10],"as":[11],"a":[12,82,96],"novel":[13],"method":[14,27,83],"for":[15],"the":[16,29,44,60,67,85,106,113,117],"structural":[17],"analysis":[18],"biomolecules.":[20],"Using":[21],"approximate":[22],"matching":[24],"techniques,":[25],"this":[26,80],"enables":[28,43],"robust":[30],"identification":[31],"approximately":[33],"conserved":[34],"patterns":[35],"in":[36],"biologically":[37],"related":[38],"structures.":[39],"In":[40,79],"particular,":[41],"MGA":[42,63],"characterization":[45],"functional":[47],"protein":[48],"families":[49],"independent":[50],"sequence":[52],"or":[53],"fold":[54],"homology.":[55],"This":[56],"article":[57],"first":[58],"recalls":[59],"and":[64,92],"then":[65],"addresses":[66],"problem":[68],"computing":[70],"optimal":[71],"alignments":[72],"from":[73,84],"an":[74,120],"algorithmic":[75],"point":[76],"view.":[78],"regard,":[81],"field":[86],"evolutionary":[88],"algorithms":[89],"is":[90,103],"proposed":[91],"empirically":[93],"compared":[94],"with":[95],"hitherto":[97],"existing":[98],"heuristic":[99],"approach.":[100],"Empirically,":[101],"it":[102],"shown":[104],"that":[105],"former":[107],"yields":[108],"significantly":[109],"better":[110],"results":[111],"than":[112],"latter,":[114],"albeit":[115],"at":[116],"cost":[118],"increased":[121],"runtime.":[122]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":1}],"updated_date":"2026-06-23T06:36:01.041984","created_date":"2025-10-10T00:00:00"}