{"id":"https://openalex.org/W1968637495","doi":"https://doi.org/10.1371/journal.pcbi.1002514","title":"Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs","display_name":"Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs","publication_year":2012,"publication_date":"2012-05-17","ids":{"openalex":"https://openalex.org/W1968637495","doi":"https://doi.org/10.1371/journal.pcbi.1002514","mag":"1968637495","pmid":"https://pubmed.ncbi.nlm.nih.gov/22615551"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1002514","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002514","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002514&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002514&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5084558956","display_name":"Adrian Altenhoff","orcid":"https://orcid.org/0000-0001-7492-1273"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]},{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Adrian M. Altenhoff","raw_affiliation_strings":["ETH Zurich, Department of Computer Science, Z\u00fcrich, Switzerland","Swiss Institute of Bioinformatics, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"ETH Zurich, Department of Computer Science, Z\u00fcrich, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics, Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008456362","display_name":"Romain A. Studer","orcid":"https://orcid.org/0000-0003-0687-9848"},"institutions":[{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]},{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I4210157240","display_name":"Institute of Structural and Molecular Biology","ror":"https://ror.org/05wsetc54","country_code":"GB","type":"facility","lineage":["https://openalex.org/I124357947","https://openalex.org/I124357947","https://openalex.org/I4210157240","https://openalex.org/I45129253","https://openalex.org/I98259816"]},{"id":"https://openalex.org/I97565354","display_name":"University of Lausanne","ror":"https://ror.org/019whta54","country_code":"CH","type":"education","lineage":["https://openalex.org/I97565354"]}],"countries":["CH","GB"],"is_corresponding":false,"raw_author_name":"Romain A. Studer","raw_affiliation_strings":["Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland","Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom","Swiss Institute of Bioinformatics, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom","institution_ids":["https://openalex.org/I4210157240","https://openalex.org/I45129253"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics, Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054250703","display_name":"Marc Robinson\u2010Rechavi","orcid":"https://orcid.org/0000-0002-3437-3329"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I97565354","display_name":"University of Lausanne","ror":"https://ror.org/019whta54","country_code":"CH","type":"education","lineage":["https://openalex.org/I97565354"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Marc Robinson-Rechavi","raw_affiliation_strings":["Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland","Swiss Institute of Bioinformatics, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics, Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050068380","display_name":"Christophe Dessimoz","orcid":"https://orcid.org/0000-0002-2170-853X"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]},{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]}],"countries":["CH","GB"],"is_corresponding":true,"raw_author_name":"Christophe Dessimoz","raw_affiliation_strings":["EMBL-European Bioinformatics Institute, Hinxton, Cambridge, United Kingdom","ETH Zurich, Department of Computer Science, Z\u00fcrich, Switzerland","Swiss Institute of Bioinformatics, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"EMBL-European Bioinformatics Institute, Hinxton, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"ETH Zurich, Department of Computer Science, Z\u00fcrich, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics, Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5050068380"],"corresponding_institution_ids":["https://openalex.org/I12708293","https://openalex.org/I1303153112","https://openalex.org/I35440088"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":6.9875,"has_fulltext":true,"cited_by_count":263,"citation_normalized_percentile":{"value":0.97841385,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"8","issue":"5","first_page":"e1002514","last_page":"e1002514"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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":0.996999979019165,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9969000220298767,"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/biology","display_name":"Biology","score":0.7579667568206787},{"id":"https://openalex.org/keywords/phylogenomics","display_name":"Phylogenomics","score":0.6707146167755127},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.6251273155212402},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6032942533493042},{"id":"https://openalex.org/keywords/functional-divergence","display_name":"Functional divergence","score":0.5678680539131165},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.5462254881858826},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.47257673740386963},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.47224563360214233},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4587140679359436},{"id":"https://openalex.org/keywords/gene-duplication","display_name":"Gene duplication","score":0.44331279397010803},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.4284958839416504},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.353951632976532},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2977103590965271},{"id":"https://openalex.org/keywords/gene-family","display_name":"Gene family","score":0.11353433132171631},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.07136714458465576}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7579667568206787},{"id":"https://openalex.org/C70343354","wikidata":"https://www.wikidata.org/wiki/Q3381973","display_name":"Phylogenomics","level":5,"score":0.6707146167755127},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.6251273155212402},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6032942533493042},{"id":"https://openalex.org/C103077935","wikidata":"https://www.wikidata.org/wiki/Q5508811","display_name":"Functional divergence","level":5,"score":0.5678680539131165},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.5462254881858826},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.47257673740386963},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.47224563360214233},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4587140679359436},{"id":"https://openalex.org/C7602840","wikidata":"https://www.wikidata.org/wiki/Q746284","display_name":"Gene duplication","level":3,"score":0.44331279397010803},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.4284958839416504},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.353951632976532},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2977103590965271},{"id":"https://openalex.org/C5911399","wikidata":"https://www.wikidata.org/wiki/Q2278983","display_name":"Gene family","level":4,"score":0.11353433132171631},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.07136714458465576},{"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/C44465124","wikidata":"https://www.wikidata.org/wiki/Q713623","display_name":"Clade","level":4,"score":0.0},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":11,"locations":[{"id":"doi:10.1371/journal.pcbi.1002514","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002514","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002514&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmid:22615551","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22615551","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:iris.unil.ch:iris/151190","is_oa":true,"landing_page_url":"https://iris.unil.ch/handle/iris/151190","pdf_url":"https://iris.unil.ch/bitstreams/85420101-d84e-473b-a988-9f11dec90524/download","source":{"id":"https://openalex.org/S7407055444","display_name":"IRIS","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":null,"raw_type":"journal article"},{"id":"pmh:oai:RePEc:plo:pcbi00:1002514","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002514","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"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":"article"},{"id":"pmh:oai:doaj.org/article:8bee95db7db04db0a4f3b32bc3922077","is_oa":true,"landing_page_url":"https://doaj.org/article/8bee95db7db04db0a4f3b32bc3922077","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 8, Iss 5, p e1002514 (2012)","raw_type":"article"},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:1395189","is_oa":false,"landing_page_url":"http://discovery.ucl.ac.uk/1395189/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400024","display_name":"UCL Discovery (University College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I45129253","host_organization_name":"University College London","host_organization_lineage":["https://openalex.org/I45129253"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"   PLOS COMPUTATIONAL BIOLOGY , 8  (5)     (2012)      ","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:2361471","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3355068","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:figshare.com:article/124961","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Resolving_the_Ortholog_Conjecture_Orthologs_Tend_to_Be_Weakly_but_Significantly_More_Similar_in_Function_than_Paralogs/124961","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"},{"id":"pmh:oai:serval.unil.ch:BIB_89CB0AF6A1E2","is_oa":true,"landing_page_url":"https://serval.unil.ch/notice/serval:BIB_89CB0AF6A1E2","pdf_url":null,"source":{"id":"https://openalex.org/S4306401797","display_name":"SERVAL (Universit\u00e9 de Lausanne)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210093590","host_organization_name":"Swiss School of Archaeology in Greece","host_organization_lineage":["https://openalex.org/I4210093590"],"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":"PLoS Computational Biology, vol. 8, no. 5, pp. e1002514","raw_type":"info:eu-repo/semantics/submittedVersion"},{"id":"pmh:oai:www.research-collection.ethz.ch:20.500.11850/51357","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/51357","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"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":"PLoS Computational Biology, 8 (5)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"doi:10.3929/ethz-b-000051357","is_oa":true,"landing_page_url":"https://doi.org/10.3929/ethz-b-000051357","pdf_url":null,"source":{"id":"https://openalex.org/S7407051236","display_name":"ETH Z\u00fcrich Research Collection","issn_l":null,"issn":[],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1002514","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002514","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002514&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6299999952316284,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[{"id":"https://openalex.org/G125759156","display_name":"The Million Protein, Thousand Species Tree(s) of Life","funder_award_id":"136461","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G2210344477","display_name":"Bioinformatic study of molecular evolution in the context of animal development and anatomy","funder_award_id":"133011","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G2325036996","display_name":"Structural analyses of the impact of positive selection in evolution","funder_award_id":"132476","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G2784612123","display_name":"EvoSite3D: structural and evolutionary paleogenomic analysis of proteins","funder_award_id":"136477","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1968637495.pdf","grobid_xml":"https://content.openalex.org/works/W1968637495.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1647729745","https://openalex.org/W1986367828","https://openalex.org/W1990453950","https://openalex.org/W2009234149","https://openalex.org/W2027745562","https://openalex.org/W2041944280","https://openalex.org/W2044892321","https://openalex.org/W2045391589","https://openalex.org/W2045534443","https://openalex.org/W2048448217","https://openalex.org/W2057387739","https://openalex.org/W2069707569","https://openalex.org/W2084168100","https://openalex.org/W2096939566","https://openalex.org/W2101783948","https://openalex.org/W2103150692","https://openalex.org/W2107038434","https://openalex.org/W2111973517","https://openalex.org/W2117805756","https://openalex.org/W2121343862","https://openalex.org/W2135125252","https://openalex.org/W2145189015","https://openalex.org/W2149233464","https://openalex.org/W2151859071","https://openalex.org/W2167455933","https://openalex.org/W2276605232","https://openalex.org/W2577648383","https://openalex.org/W2745750801","https://openalex.org/W2950225692","https://openalex.org/W3012079654","https://openalex.org/W4210241463","https://openalex.org/W4210347168","https://openalex.org/W6636975626"],"related_works":["https://openalex.org/W2097460046","https://openalex.org/W2166212839","https://openalex.org/W2067460354","https://openalex.org/W2565683002","https://openalex.org/W2387304298","https://openalex.org/W2009414370","https://openalex.org/W2150133233","https://openalex.org/W2128301953","https://openalex.org/W1579430094","https://openalex.org/W4292640607"],"abstract_inverted_index":{"The":[0],"function":[1,25,157],"of":[2,22,48,80,87,141],"most":[3],"proteins":[4],"is":[5,10,115],"not":[6],"determined":[7],"experimentally,":[8],"but":[9],"extrapolated":[11],"from":[12,55,145],"homologs.":[13],"According":[14],"to":[15,31,65,74],"the":[16,39],"\"ortholog":[17],"conjecture\",":[18],"or":[19,153],"standard":[20],"model":[21,146],"phylogenomics,":[23],"protein":[24],"changes":[26],"rapidly":[27],"after":[28],"duplication,":[29],"leading":[30],"paralogs":[32],"with":[33,130,158],"different":[34],"functions,":[35],"while":[36],"orthologs":[37,105,144],"retain":[38],"ancestral":[40],"function.":[41],"We":[42,62,121],"report":[43],"here":[44],"that":[45,64,104],"a":[46,124,138],"comparison":[47],"experimentally":[49],"supported":[50],"functional":[51,110,128],"annotations":[52,111],"among":[53,84,90],"homologs":[54],"13":[56],"genomes":[57],"mostly":[58],"supports":[59],"this":[60],"model.":[61],"show":[63],"analyze":[66],"GO":[67,81],"annotation":[68,95],"effectively,":[69],"several":[70],"confounding":[71],"factors":[72],"need":[73],"be":[75],"controlled:":[76],"authorship":[77],"bias,":[78],"variation":[79,86],"term":[82],"frequency":[83],"species,":[85],"background":[88],"similarity":[89,129],"species":[91],"pairs,":[92],"and":[93],"propagated":[94],"bias.":[96],"After":[97],"controlling":[98],"for":[99,118],"these":[100],"biases,":[101],"we":[102],"observe":[103,122],"have":[106,155],"generally":[107],"more":[108],"similar":[109],"than":[112],"paralogs.":[113],"This":[114],"especially":[116],"strong":[117],"sub-cellular":[119],"localization.":[120],"only":[123],"weak":[125],"decrease":[126],"in":[127],"increasing":[131],"sequence":[132],"divergence.":[133],"These":[134],"findings":[135],"hold":[136],"over":[137],"large":[139],"diversity":[140],"species;":[142],"notably":[143],"organisms":[147],"such":[148],"as":[149],"E.":[150],"coli,":[151],"yeast":[152],"mouse":[154],"conserved":[156],"human":[159],"proteins.":[160]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":19},{"year":2023,"cited_by_count":14},{"year":2022,"cited_by_count":19},{"year":2021,"cited_by_count":33},{"year":2020,"cited_by_count":41},{"year":2019,"cited_by_count":21},{"year":2018,"cited_by_count":20},{"year":2017,"cited_by_count":9},{"year":2016,"cited_by_count":19},{"year":2015,"cited_by_count":9},{"year":2014,"cited_by_count":21},{"year":2013,"cited_by_count":16},{"year":2012,"cited_by_count":6}],"updated_date":"2026-06-09T15:46:55.921056","created_date":"2025-10-10T00:00:00"}
