{"id":"https://openalex.org/W2118426458","doi":"https://doi.org/10.1186/1471-2105-14-s15-s18","title":"Mapping proteins in the presence of paralogs using units of coevolution","display_name":"Mapping proteins in the presence of paralogs using units of coevolution","publication_year":2013,"publication_date":"2013-10-01","ids":{"openalex":"https://openalex.org/W2118426458","doi":"https://doi.org/10.1186/1471-2105-14-s15-s18","mag":"2118426458","pmid":"https://pubmed.ncbi.nlm.nih.gov/24564758"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-14-s15-s18","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-s15-s18","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-S15-S18","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/counter/pdf/10.1186/1471-2105-14-S15-S18","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5089040838","display_name":"Mohammed El-Kebir","orcid":"https://orcid.org/0000-0002-1468-2407"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832","https://openalex.org/I4405262988"]},{"id":"https://openalex.org/I911458345","display_name":"Amsterdam UMC Location Vrije Universiteit Amsterdam","ror":"https://ror.org/00q6h8f30","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I4210151833","https://openalex.org/I911458345"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Mohammed El-Kebir","raw_affiliation_strings":["Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands","Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I911458345"]},{"raw_affiliation_string":"Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I1341640284"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067570776","display_name":"Tobias Marschall","orcid":"https://orcid.org/0000-0002-9376-1030"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832","https://openalex.org/I4405262988"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Tobias Marschall","raw_affiliation_strings":["Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I1341640284"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016549644","display_name":"Inken Wohlers","orcid":"https://orcid.org/0000-0003-4004-0464"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832","https://openalex.org/I4405262988"]},{"id":"https://openalex.org/I62318514","display_name":"University of Duisburg-Essen","ror":"https://ror.org/04mz5ra38","country_code":"DE","type":"education","lineage":["https://openalex.org/I62318514"]}],"countries":["DE","NL"],"is_corresponding":false,"raw_author_name":"Inken Wohlers","raw_affiliation_strings":["Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands","University of Duisburg-Essen, Genome Informatics, Essen, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I1341640284"]},{"raw_affiliation_string":"University of Duisburg-Essen, Genome Informatics, Essen, Germany","institution_ids":["https://openalex.org/I62318514"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026228482","display_name":"Murray Patterson","orcid":"https://orcid.org/0000-0002-4329-0234"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832","https://openalex.org/I4405262988"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Murray Patterson","raw_affiliation_strings":["Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I1341640284"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108522619","display_name":"Jaap Heringa","orcid":null},"institutions":[{"id":"https://openalex.org/I911458345","display_name":"Amsterdam UMC Location Vrije Universiteit Amsterdam","ror":"https://ror.org/00q6h8f30","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I4210151833","https://openalex.org/I911458345"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Jaap Heringa","raw_affiliation_strings":["Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I911458345"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001148638","display_name":"Alexander Sch\u00f6nhuth","orcid":"https://orcid.org/0000-0003-3529-0856"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832","https://openalex.org/I4405262988"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Alexander Sch\u00f6nhuth","raw_affiliation_strings":["Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I1341640284"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029642674","display_name":"Gunnar W. Klau","orcid":"https://orcid.org/0000-0002-6340-0090"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832","https://openalex.org/I4405262988"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Gunnar W Klau","raw_affiliation_strings":["Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica (CWI), Life Sciences Group, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I1341640284"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5029642674","https://openalex.org/A5089040838"],"corresponding_institution_ids":["https://openalex.org/I1341640284","https://openalex.org/I911458345"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.2752,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.59928962,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"14","issue":"S15","first_page":"S18","last_page":"S18"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.8151000142097473,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.8151000142097473,"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":0.06920000165700912,"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/T10064","display_name":"Complex Network Analysis Techniques","score":0.02410000003874302,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/coevolution","display_name":"Coevolution","score":0.933652400970459},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5798560976982117},{"id":"https://openalex.org/keywords/binary-number","display_name":"Binary number","score":0.5248517990112305},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4305403530597687},{"id":"https://openalex.org/keywords/state","display_name":"State (computer science)","score":0.42114490270614624},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.38540583848953247},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2968268394470215},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.2581418454647064},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.22287368774414062},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1498885154724121},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.1265544295310974}],"concepts":[{"id":"https://openalex.org/C33009525","wikidata":"https://www.wikidata.org/wiki/Q208841","display_name":"Coevolution","level":2,"score":0.933652400970459},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5798560976982117},{"id":"https://openalex.org/C48372109","wikidata":"https://www.wikidata.org/wiki/Q3913","display_name":"Binary number","level":2,"score":0.5248517990112305},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4305403530597687},{"id":"https://openalex.org/C48103436","wikidata":"https://www.wikidata.org/wiki/Q599031","display_name":"State (computer science)","level":2,"score":0.42114490270614624},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.38540583848953247},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2968268394470215},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.2581418454647064},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.22287368774414062},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1498885154724121},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.1265544295310974},{"id":"https://openalex.org/C94375191","wikidata":"https://www.wikidata.org/wiki/Q11205","display_name":"Arithmetic","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","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":"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":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1186/1471-2105-14-s15-s18","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-s15-s18","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-S15-S18","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:24564758","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24564758","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":null},{"id":"pmh:oai:research.vu.nl:openaire/0373abe5-5d63-4294-b4c1-600cccdb834a","is_oa":true,"landing_page_url":"https://research.vu.nl/en/publications/0373abe5-5d63-4294-b4c1-600cccdb834a","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"El-Kebir, M, Marschall, T, Wohlers, I, Patterson, M D, Heringa, J, Sch\u00f6nhuth, A & Klau, G W 2013, 'Mapping proteins in the presence of paralogs using units of coevolution', BMC Bioinformatics, vol. 14, no. Suppl. 15, pp. S18. https://doi.org/10.1186/1471-2105-14-S15-S18","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:boa.unimib.it:10281/217371","is_oa":true,"landing_page_url":"http://hdl.handle.net/10281/217371","pdf_url":"http://hdl.handle.net/10281/217371","source":{"id":"https://openalex.org/S4306401259","display_name":"BOA (University of Milano-Bicocca)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I66752286","host_organization_name":"University of Milano-Bicocca","host_organization_lineage":["https://openalex.org/I66752286"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:cwi.nl:22261","is_oa":true,"landing_page_url":"https://ir.cwi.nl/pub/22261","pdf_url":"https://ir.cwi.nl/pub/22261/22261D.pdf","source":{"id":"https://openalex.org/S7407055335","display_name":"Centrum Wiskunde & Informatica (CWI), the national research institute for mathematics and computer science in the Netherlands","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","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:cwi:oai:cwi.nl:21584","is_oa":false,"landing_page_url":"https://ir.cwi.nl/pub/21584","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, 14(Suppl 15)","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:2852300","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3852051","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pub.uni-bielefeld.de:2941835","is_oa":false,"landing_page_url":"https://pub.uni-bielefeld.de/record/2941835","pdf_url":null,"source":{"id":"https://openalex.org/S4306401624","display_name":"Publikationen an der Universit\u00e4t Bielefeld (Universit\u00e4t Bielefeld)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"http://purl.org/coar/resource_type/c_6501"},{"id":"pmh:oai:research.vu.nl:openaire_cris_publications/0373abe5-5d63-4294-b4c1-600cccdb834a","is_oa":true,"landing_page_url":"https://hdl.handle.net/1871.1/0373abe5-5d63-4294-b4c1-600cccdb834a","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"El-Kebir, M, Marschall, T, Wohlers, I, Patterson, M D, Heringa, J, Sch\u00f6nhuth, A & Klau, G W 2013, 'Mapping proteins in the presence of paralogs using units of coevolution', BMC Bioinformatics, vol. 14, no. Suppl. 15, pp. S18. https://doi.org/10.1186/1471-2105-14-S15-S18","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-14-s15-s18","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-s15-s18","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-S15-S18","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":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2118426458.pdf","grobid_xml":"https://content.openalex.org/works/W2118426458.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W1533396222","https://openalex.org/W1988591865","https://openalex.org/W2022583501","https://openalex.org/W2067592402","https://openalex.org/W2097826371","https://openalex.org/W2100025044","https://openalex.org/W2107427454","https://openalex.org/W2116087481","https://openalex.org/W2124567458","https://openalex.org/W2125312742","https://openalex.org/W2130909239","https://openalex.org/W2132022258","https://openalex.org/W2141885858","https://openalex.org/W2152568394","https://openalex.org/W2155320525","https://openalex.org/W2156216305","https://openalex.org/W4210400672"],"related_works":["https://openalex.org/W3144412313","https://openalex.org/W2634235285","https://openalex.org/W2492504662","https://openalex.org/W2122994901","https://openalex.org/W200599908","https://openalex.org/W2151437643","https://openalex.org/W2020991882","https://openalex.org/W4389610483","https://openalex.org/W3029360881","https://openalex.org/W3203800561"],"abstract_inverted_index":{"BACKGROUND:":[0],"We":[1,71],"study":[2],"the":[3,13,42,53,73,82,98,101,114,144,167],"problem":[4,18,117],"of":[5,15,49,84,89,100,113,138,157],"mapping":[6,116],"proteins":[7],"between":[8],"two":[9,90],"protein":[10,92],"families":[11],"in":[12,24,66,153],"presence":[14],"paralogs.":[16],"This":[17,103],"occurs":[19],"as":[20],"a":[21,59,67,109,123,135,154,163],"difficult":[22],"subproblem":[23],"coevolution-based":[25],"computational":[26],"approaches":[27],"for":[28,143],"protein-protein":[29],"interaction":[30],"prediction.":[31],"RESULTS:":[32],"Similar":[33],"to":[34,62,78,107,119,148,166],"prior":[35],"approaches,":[36,170],"our":[37,130],"method":[38],"is":[39,172],"based":[40,133],"on":[41,134],"idea":[43],"that":[44,75],"coevolution":[45,99],"implies":[46],"equal":[47],"rates":[48],"sequence":[50],"evolution":[51],"among":[52],"interacting":[54],"proteins,":[55],"and":[56,94,118,175],"we":[57,161],"provide":[58,108],"first":[60,145],"attempt":[61],"quantify":[63],"this":[64,79,139],"notion":[65],"formal":[68],"statistical":[69],"manner.":[70],"call":[72],"units":[74,83],"are":[76],"central":[77],"quantification":[80,104],"scheme":[81],"coevolution.":[85],"A":[86],"unit":[87],"consists":[88],"mapped":[91],"pairs":[93],"its":[95],"score":[96],"quantifies":[97],"pairs.":[102],"allows":[105],"us":[106],"maximum":[110],"likelihood":[111],"formulation":[112],"paralog":[115],"cast":[120],"it":[121],"into":[122],"binary":[124],"quadratic":[125],"programming":[126],"formulation.":[127],"CONCLUSION:":[128],"CUPID,":[129],"software":[131],"tool":[132],"Lagrangian":[136],"relaxation":[137],"formulation,":[140],"makes":[141],"it,":[142],"time,":[146],"possible":[147],"compute":[149],"state-of-the-art":[150],"quality":[151],"pairings":[152],"few":[155],"minutes":[156],"runtime.":[158],"In":[159],"summary,":[160],"suggest":[162],"novel":[164],"alternative":[165],"earlier":[168],"available":[169],"which":[171],"statistically":[173],"sound":[174],"computationally":[176],"feasible.":[177]},"counts_by_year":[{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-08-04T08:18:43.703281","created_date":"2025-10-10T00:00:00"}
