{"id":"https://openalex.org/W138035701","doi":null,"title":"The relationship between orthology, protein domain architecture and protein function","display_name":"The relationship between orthology, protein domain architecture and protein function","publication_year":2011,"publication_date":"2011-01-01","ids":{"openalex":"https://openalex.org/W138035701","mag":"138035701"},"language":"en","primary_location":{"id":"pmh:oai:DiVA.org:su-62152","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-62152","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I86987016","host_organization_name":"KTH Royal Institute of Technology","host_organization_lineage":["https://openalex.org/I86987016"],"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/doctoralThesis"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-62152","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5036688931","display_name":"Sofia Kirke Forslund","orcid":"https://orcid.org/0000-0003-4285-6993","observed_orcids":["https://orcid.org/0000-0003-4285-6993"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Sofia K. Forslund","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0003-4285-6993","affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5036688931"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9672999978065491,"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":0.9672999978065491,"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":0.01489999983459711,"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":0.00279999990016222,"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/orthology","display_name":"orthology","score":0.7480000257492065},{"id":"https://openalex.org/keywords/paralogy","display_name":"paralogy","score":0.859000027179718},{"id":"https://openalex.org/keywords/protein-domain-architecture","display_name":"protein domain architecture","score":0.8859999775886536},{"id":"https://openalex.org/keywords/domain-combinations","display_name":"domain combinations","score":0.6660000085830688},{"id":"https://openalex.org/keywords/protein-function-prediction","display_name":"protein function prediction","score":0.9480000138282776},{"id":"https://openalex.org/keywords/gene-duplication","display_name":"gene duplication","score":0.6669999957084656},{"id":"https://openalex.org/keywords/inparanoid","display_name":"InParanoid","score":0.7580000162124634},{"id":"https://openalex.org/keywords/homology-inference","display_name":"homology inference","score":0.8730000257492065},{"id":"https://openalex.org/keywords/low-complexity-regions","display_name":"low complexity regions","score":0.9169999957084656},{"id":"https://openalex.org/keywords/gene-tree-reconstruction","display_name":"gene tree reconstruction","score":0.5070000290870667},{"id":"https://openalex.org/keywords/intron-positions","display_name":"intron positions","score":0.5929999947547913}],"concepts":[{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5158997774124146},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4822729229927063},{"id":"https://openalex.org/C144292202","wikidata":"https://www.wikidata.org/wiki/Q898273","display_name":"Protein domain","level":3,"score":0.44265320897102356},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.42765137553215027},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.36324888467788696},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.34612762928009033},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.261530339717865},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.22919288277626038},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16170084476470947},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10154604911804199},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:DiVA.org:su-62152","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-62152","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I86987016","host_organization_name":"KTH Royal Institute of Technology","host_organization_lineage":["https://openalex.org/I86987016"],"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/doctoralThesis"},{"id":"mag:138035701","doi":null,"is_oa":false,"landing_page_url":"https://su.diva-portal.org/smash/record.jsf?pid=diva2:440846","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:DiVA.org:su-62152","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-62152","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I86987016","host_organization_name":"KTH Royal Institute of Technology","host_organization_lineage":["https://openalex.org/I86987016"],"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/doctoralThesis"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":378,"referenced_works":["https://openalex.org/W80140380","https://openalex.org/W129655324","https://openalex.org/W319819633","https://openalex.org/W1485242531","https://openalex.org/W1493919779","https://openalex.org/W1503101850","https://openalex.org/W1507091143","https://openalex.org/W1508885706","https://openalex.org/W1519266993","https://openalex.org/W1524662923","https://openalex.org/W1537213512","https://openalex.org/W1570477334","https://openalex.org/W1581315874","https://openalex.org/W1590240800","https://openalex.org/W1597538863","https://openalex.org/W1600070587","https://openalex.org/W1817561967","https://openalex.org/W1828108832","https://openalex.org/W1871466069","https://openalex.org/W1878895891","https://openalex.org/W1940854517","https://openalex.org/W1958476169","https://openalex.org/W1964640688","https://openalex.org/W1965998064","https://openalex.org/W1967837099","https://openalex.org/W1968031638","https://openalex.org/W1968697272","https://openalex.org/W1969051510","https://openalex.org/W1969057737","https://openalex.org/W1969230095","https://openalex.org/W1969460352","https://openalex.org/W1971155547","https://openalex.org/W1971231926","https://openalex.org/W1971650367","https://openalex.org/W1972631150","https://openalex.org/W1973481154","https://openalex.org/W1973491891","https://openalex.org/W1974748393","https://openalex.org/W1976061151","https://openalex.org/W1976937534","https://openalex.org/W1977027195","https://openalex.org/W1977224551","https://openalex.org/W1977922844","https://openalex.org/W1978444265","https://openalex.org/W1980948656","https://openalex.org/W1982481323","https://openalex.org/W1983538888","https://openalex.org/W1983610133","https://openalex.org/W1983932608","https://openalex.org/W1984631788","https://openalex.org/W1985307298","https://openalex.org/W1986367828","https://openalex.org/W1988496202","https://openalex.org/W1988884004","https://openalex.org/W1989509003","https://openalex.org/W1989816352","https://openalex.org/W1990056477","https://openalex.org/W1994261741","https://openalex.org/W1995245082","https://openalex.org/W1995404781","https://openalex.org/W1995413875","https://openalex.org/W1996599952","https://openalex.org/W1998931368","https://openalex.org/W1999250095","https://openalex.org/W2003788979","https://openalex.org/W2004759596","https://openalex.org/W2006368030","https://openalex.org/W2007447692","https://openalex.org/W2007933226","https://openalex.org/W2008116827","https://openalex.org/W2008518693","https://openalex.org/W2008620264","https://openalex.org/W2008856488","https://openalex.org/W2009234149","https://openalex.org/W2009505131","https://openalex.org/W2009570821","https://openalex.org/W2010352922","https://openalex.org/W2010562878","https://openalex.org/W2011986160","https://openalex.org/W2012911917","https://openalex.org/W2014719716","https://openalex.org/W2015292449","https://openalex.org/W2017864184","https://openalex.org/W2018486257","https://openalex.org/W2019032222","https://openalex.org/W2019146834","https://openalex.org/W2020166242","https://openalex.org/W2020739850","https://openalex.org/W2022219709","https://openalex.org/W2022633023","https://openalex.org/W2026353653","https://openalex.org/W2027031393","https://openalex.org/W2027454509","https://openalex.org/W2027745562","https://openalex.org/W2029158589","https://openalex.org/W2029195137","https://openalex.org/W2029372233","https://openalex.org/W2030317329","https://openalex.org/W2031170804","https://openalex.org/W2031903428","https://openalex.org/W2032506253","https://openalex.org/W2033177501","https://openalex.org/W2033524893","https://openalex.org/W2034011015","https://openalex.org/W2035333716","https://openalex.org/W2036149515","https://openalex.org/W2037883697","https://openalex.org/W2037993016","https://openalex.org/W2039925876","https://openalex.org/W2041944280","https://openalex.org/W2042500831","https://openalex.org/W2043092219","https://openalex.org/W2043708857","https://openalex.org/W2044892321","https://openalex.org/W2045534443","https://openalex.org/W2045729458","https://openalex.org/W2045839655","https://openalex.org/W2046535373","https://openalex.org/W2046892081","https://openalex.org/W2047405437","https://openalex.org/W2048448217","https://openalex.org/W2048512322","https://openalex.org/W2048947602","https://openalex.org/W2051541780","https://openalex.org/W2051916497","https://openalex.org/W2052315005","https://openalex.org/W2055033601","https://openalex.org/W2055043387","https://openalex.org/W2055758623","https://openalex.org/W2056584222","https://openalex.org/W2057545775","https://openalex.org/W2058910748","https://openalex.org/W2059123697","https://openalex.org/W2060791849","https://openalex.org/W2061078854","https://openalex.org/W2062220010","https://openalex.org/W2063252182","https://openalex.org/W2064512813","https://openalex.org/W2065461553","https://openalex.org/W2066695328","https://openalex.org/W2066718232","https://openalex.org/W2067364375","https://openalex.org/W2068381776","https://openalex.org/W2068886104","https://openalex.org/W2069707569","https://openalex.org/W2070987430","https://openalex.org/W2071378905","https://openalex.org/W2074231493","https://openalex.org/W2074308942","https://openalex.org/W2074443723","https://openalex.org/W2075286485","https://openalex.org/W2076048958","https://openalex.org/W2076502650","https://openalex.org/W2076620247","https://openalex.org/W2076855446","https://openalex.org/W2079656678","https://openalex.org/W2082202339","https://openalex.org/W2084168100","https://openalex.org/W2085176241","https://openalex.org/W2085277871","https://openalex.org/W2086130370","https://openalex.org/W2086301041","https://openalex.org/W2087064593","https://openalex.org/W2088286307","https://openalex.org/W2089274836","https://openalex.org/W2094519647","https://openalex.org/W2096096221","https://openalex.org/W2096525273","https://openalex.org/W2096998479","https://openalex.org/W2098354205","https://openalex.org/W2098558111","https://openalex.org/W2099182237","https://openalex.org/W2099549203","https://openalex.org/W2100018338","https://openalex.org/W2100022666","https://openalex.org/W2100320834","https://openalex.org/W2100494857","https://openalex.org/W2100668314","https://openalex.org/W2100935296","https://openalex.org/W2100990314","https://openalex.org/W2101220662","https://openalex.org/W2102379149","https://openalex.org/W2102424043","https://openalex.org/W2102424972","https://openalex.org/W2102502076","https://openalex.org/W2102856132","https://openalex.org/W2103017472","https://openalex.org/W2103148772","https://openalex.org/W2103150692","https://openalex.org/W2104601544","https://openalex.org/W2106044656","https://openalex.org/W2106391842","https://openalex.org/W2106882534","https://openalex.org/W2107060668","https://openalex.org/W2107537542","https://openalex.org/W2107710781","https://openalex.org/W2109715166","https://openalex.org/W2109879947","https://openalex.org/W2110400988","https://openalex.org/W2112174618","https://openalex.org/W2112492958","https://openalex.org/W2112493377","https://openalex.org/W2112792893","https://openalex.org/W2112884978","https://openalex.org/W2113613985","https://openalex.org/W2113922914","https://openalex.org/W2114250447","https://openalex.org/W2115138247","https://openalex.org/W2115467411","https://openalex.org/W2115590956","https://openalex.org/W2115595474","https://openalex.org/W2116423958","https://openalex.org/W2116829288","https://openalex.org/W2117077088","https://openalex.org/W2117678820","https://openalex.org/W2118581189","https://openalex.org/W2118619377","https://openalex.org/W2119362018","https://openalex.org/W2119631996","https://openalex.org/W2119801041","https://openalex.org/W2120561148","https://openalex.org/W2120653759","https://openalex.org/W2120864016","https://openalex.org/W2121085676","https://openalex.org/W2121166240","https://openalex.org/W2121479060","https://openalex.org/W2121564430","https://openalex.org/W2121884322","https://openalex.org/W2122281839","https://openalex.org/W2122451246","https://openalex.org/W2122576958","https://openalex.org/W2123060905","https://openalex.org/W2123500593","https://openalex.org/W2123846230","https://openalex.org/W2123858481","https://openalex.org/W2124105487","https://openalex.org/W2124285343","https://openalex.org/W2124354935","https://openalex.org/W2124397449","https://openalex.org/W2124815061","https://openalex.org/W2124871329","https://openalex.org/W2124908487","https://openalex.org/W2125029076","https://openalex.org/W2126045294","https://openalex.org/W2126775187","https://openalex.org/W2127554948","https://openalex.org/W2127563440","https://openalex.org/W2127660113","https://openalex.org/W2127719885","https://openalex.org/W2127774996","https://openalex.org/W2127966416","https://openalex.org/W2128049108","https://openalex.org/W2128491398","https://openalex.org/W2129147686","https://openalex.org/W2129448726","https://openalex.org/W2130479394","https://openalex.org/W2130581715","https://openalex.org/W2130832525","https://openalex.org/W2131097645","https://openalex.org/W2131232002","https://openalex.org/W2132122858","https://openalex.org/W2132926880","https://openalex.org/W2133070552","https://openalex.org/W2133312664","https://openalex.org/W2133657429","https://openalex.org/W2133790733","https://openalex.org/W2133892581","https://openalex.org/W2134206588","https://openalex.org/W2135123683","https://openalex.org/W2135194391","https://openalex.org/W2135621733","https://openalex.org/W2136252135","https://openalex.org/W2136280642","https://openalex.org/W2137084536","https://openalex.org/W2137464714","https://openalex.org/W2137786672","https://openalex.org/W2137917513","https://openalex.org/W2138459937","https://openalex.org/W2138790588","https://openalex.org/W2139436782","https://openalex.org/W2139480416","https://openalex.org/W2140000393","https://openalex.org/W2140455347","https://openalex.org/W2140611547","https://openalex.org/W2141885858","https://openalex.org/W2142045367","https://openalex.org/W2142237411","https://openalex.org/W2142466527","https://openalex.org/W2143592941","https://openalex.org/W2143895065","https://openalex.org/W2144363281","https://openalex.org/W2144494426","https://openalex.org/W2144885342","https://openalex.org/W2145100181","https://openalex.org/W2145293832","https://openalex.org/W2145527356","https://openalex.org/W2146771637","https://openalex.org/W2147285856","https://openalex.org/W2148950394","https://openalex.org/W2149138213","https://openalex.org/W2149911752","https://openalex.org/W2150249052","https://openalex.org/W2150681269","https://openalex.org/W2151831732","https://openalex.org/W2151859071","https://openalex.org/W2151946481","https://openalex.org/W2152075687","https://openalex.org/W2152468914","https://openalex.org/W2152469342","https://openalex.org/W2152689720","https://openalex.org/W2152875974","https://openalex.org/W2153091158","https://openalex.org/W2153299698","https://openalex.org/W2154044807","https://openalex.org/W2154364831","https://openalex.org/W2154406573","https://openalex.org/W2154610073","https://openalex.org/W2155606054","https://openalex.org/W2156055956","https://openalex.org/W2156668042","https://openalex.org/W2156699560","https://openalex.org/W2157360426","https://openalex.org/W2157529925","https://openalex.org/W2158266097","https://openalex.org/W2158292347","https://openalex.org/W2158304452","https://openalex.org/W2158478417","https://openalex.org/W2158714788","https://openalex.org/W2159266221","https://openalex.org/W2159348493","https://openalex.org/W2159482845","https://openalex.org/W2159500193","https://openalex.org/W2160521949","https://openalex.org/W2161033884","https://openalex.org/W2161062388","https://openalex.org/W2161211166","https://openalex.org/W2161394740","https://openalex.org/W2161409682","https://openalex.org/W2162142896","https://openalex.org/W2163181687","https://openalex.org/W2163363312","https://openalex.org/W2163584414","https://openalex.org/W2163748594","https://openalex.org/W2163892779","https://openalex.org/W2163895365","https://openalex.org/W2165674132","https://openalex.org/W2166468869","https://openalex.org/W2166705366","https://openalex.org/W2167177192","https://openalex.org/W2167188257","https://openalex.org/W2167786318","https://openalex.org/W2168825646","https://openalex.org/W2169361401","https://openalex.org/W2169395813","https://openalex.org/W2169929748","https://openalex.org/W2170252811","https://openalex.org/W2170831688","https://openalex.org/W2170968124","https://openalex.org/W2171437346","https://openalex.org/W2171602500","https://openalex.org/W2171674404","https://openalex.org/W2182404474","https://openalex.org/W2258440163","https://openalex.org/W2276605232","https://openalex.org/W2521298622","https://openalex.org/W2583187415","https://openalex.org/W2769133055","https://openalex.org/W2950627632","https://openalex.org/W3103362336","https://openalex.org/W3142570770","https://openalex.org/W3143219376","https://openalex.org/W4211208250","https://openalex.org/W7074179453","https://openalex.org/W7095728653","https://openalex.org/W7097002170","https://openalex.org/W7098320409","https://openalex.org/W7099253376","https://openalex.org/W7099664877"],"related_works":["https://openalex.org/W2027745562","https://openalex.org/W7098436098","https://openalex.org/W2138250093","https://openalex.org/W2969371653","https://openalex.org/W3042573861","https://openalex.org/W2804347323","https://openalex.org/W7100236830","https://openalex.org/W7096656576","https://openalex.org/W1986367828","https://openalex.org/W1968637495"],"abstract_inverted_index":{"Lacking":[0],"experimental":[1],"data,":[2],"protein":[3,11,23],"function":[4,20,84],"is":[5],"often":[6],"predicted":[7],"from":[8,25,58,85],"evolutionary":[9,117,192],"and":[10,93,135,188,199,223],"structure":[12],"theory.":[13],"Under":[14,30],"the":[15,19,26,31,52,75,86,101,116,147,158,168,179,220,224,264],"'domain":[16,76,225],"grammar'":[17,77,226],"hypothesis":[18],"of":[21,119,126,161,182,209,219,234,247,259],"a":[22,59,91,109],"follows":[24],"domains":[27,103],"it":[28],"encodes.":[29],"'orthology":[32,148,221,265],"conjecture',":[33,149],"orthologs,":[34],"related":[35],"through":[36],"species":[37,56],"formation,":[38],"are":[39,49],"expected":[40],"to":[41,122,138,166,177,215],"be":[42,139,244,268],"more":[43,140,270],"functionally":[44,183],"similar":[45],"than":[46,142],"paralogs,":[47,216],"which":[48,242],"homologs":[50],"in":[51,90,133,164,212,217,229,251],"same":[53],"or":[54],"different":[55],"descended":[57],"gene":[60],"duplication":[61],"event.":[62],"However,":[63,231],"these":[64],"assumptions":[65],"have":[66,129],"not":[67],"thus":[68],"far":[69],"been":[70],"systematically":[71],"evaluated.":[72],"To":[73,145],"test":[74,146,178],"hypothesis,":[78],"we":[79,150],"built":[80],"models":[81],"for":[82,114,124,154],"predicting":[83],"domain":[87,120,197,210],"combinations":[88,97],"present":[89],"protein,":[92],"demonstrated":[94],"that":[95,100,128],"multi-domain":[96],"imply":[98],"functions":[99],"individual":[102],"do":[104],"not.":[105],"We":[106,204],"also":[107],"developed":[108],"novel":[110],"gene-tree":[111],"based":[112],"method":[113],"reconstructing":[115],"histories":[118],"architectures,":[121,198],"search":[123],"cases":[125],"architectures":[127,211],"arisen":[130],"multiple":[131],"times":[132],"parallel,":[134],"found":[136,205],"this":[137,261],"common":[141],"previously":[143],"reported.":[144],"first":[151],"benchmarked":[152],"methods":[153],"homology":[155],"inference":[156,171],"under":[157],"obfuscating":[159],"influence":[160],"low-complexity":[162],"regions,":[163],"order":[165],"improve":[167],"InParanoid":[169,173],"orthology":[170],"algorithm.":[172],"was":[174],"then":[175],"used":[176],"relative":[180,214],"conservation":[181,208,238],"relevant":[184],"properties":[185],"between":[186],"orthologs":[187,213],"paralogs":[189],"at":[190],"various":[191],"distances,":[193],"including":[194],"intron":[195],"positions,":[196],"Gene":[200,235],"Ontology":[201,236],"functional":[202,237,252],"annotations.":[203],"an":[206,245],"increased":[207],"support":[218],"conjecture'":[222,266],"hypotheses":[227],"acting":[228],"tandem.":[230],"equivalent":[232],"analysis":[233],"yielded":[239],"spurious":[240],"results,":[241],"may":[243],"artifact":[246],"species-specific":[248],"annotation":[249,253],"biases":[250],"databases.":[254],"I":[255],"discuss":[256],"possible":[257],"ways":[258],"circumventing":[260],"bias":[262],"so":[263],"can":[267],"tested":[269],"conclusively.":[271]},"counts_by_year":[{"year":2019,"cited_by_count":1}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}