{"id":"https://openalex.org/W588600956","doi":null,"title":"Nucleotide Substitution Patterns in Vertebrate Genomes","display_name":"Nucleotide Substitution Patterns in Vertebrate Genomes","publication_year":2013,"publication_date":"2013-01-01","ids":{"openalex":"https://openalex.org/W588600956","mag":"588600956"},"language":"en","primary_location":{"id":"pmh:oai:DiVA.org:uu-198787","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-198787","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:uu:diva-198787","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060523727","display_name":"Carina F. Mugal","orcid":"https://orcid.org/0000-0003-4220-4928","observed_orcids":["https://orcid.org/0000-0003-4220-4928"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Carina F. Mugal","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0003-4220-4928","affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5060523727"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.36329999566078186,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.36329999566078186,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.32030001282691956,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.20090000331401825,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/nucleotide-substitution-patterns","display_name":"nucleotide substitution patterns","score":0.9039999842643738},{"id":"https://openalex.org/keywords/strand-asymmetry","display_name":"strand asymmetry","score":0.7990000247955322},{"id":"https://openalex.org/keywords/transcription","display_name":"transcription","score":0.7409999966621399},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.9950000047683716},{"id":"https://openalex.org/keywords/gc-content","display_name":"GC content","score":0.996999979019165},{"id":"https://openalex.org/keywords/gc-biased-gene-conversion","display_name":"GC-biased gene conversion","score":0.9919999837875366},{"id":"https://openalex.org/keywords/karyotype-stability","display_name":"karyotype stability","score":0.890999972820282},{"id":"https://openalex.org/keywords/dn-ds-ratio","display_name":"dN/dS ratio","score":0.8429999947547913},{"id":"https://openalex.org/keywords/natural-selection","display_name":"natural selection","score":0.5170000195503235},{"id":"https://openalex.org/keywords/vertebrate-genomes","display_name":"vertebrate genomes","score":0.7020000219345093},{"id":"https://openalex.org/keywords/chickens","display_name":"chickens","score":0.515999972820282},{"id":"https://openalex.org/keywords/human-genes","display_name":"human genes","score":0.6579999923706055},{"id":"https://openalex.org/keywords/mammalian-genes","display_name":"mammalian genes","score":0.7480000257492065}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.8505134582519531},{"id":"https://openalex.org/C42251679","wikidata":"https://www.wikidata.org/wiki/Q933491","display_name":"GC-content","level":4,"score":0.674345850944519},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6490854620933533},{"id":"https://openalex.org/C2778961482","wikidata":"https://www.wikidata.org/wiki/Q25241","display_name":"Vertebrate","level":3,"score":0.626570999622345},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.5804184675216675},{"id":"https://openalex.org/C174600577","wikidata":"https://www.wikidata.org/wiki/Q5533491","display_name":"Genome evolution","level":4,"score":0.5229840278625488},{"id":"https://openalex.org/C143191323","wikidata":"https://www.wikidata.org/wiki/Q118406","display_name":"Ploidy","level":3,"score":0.49109601974487305},{"id":"https://openalex.org/C2778220771","wikidata":"https://www.wikidata.org/wiki/Q1522579","display_name":"Substitution (logic)","level":2,"score":0.4562952518463135},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.44153428077697754},{"id":"https://openalex.org/C112212490","wikidata":"https://www.wikidata.org/wiki/Q471134","display_name":"Gene conversion","level":4,"score":0.4408857822418213},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4404506981372833},{"id":"https://openalex.org/C166393388","wikidata":"https://www.wikidata.org/wiki/Q856529","display_name":"Molecular evolution","level":4,"score":0.4165025055408478},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.32111334800720215},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:DiVA.org:uu-198787","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-198787","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:588600956","doi":null,"is_oa":false,"landing_page_url":"https://uu.diva-portal.org/smash/get/diva2:618090/FULLTEXT01.pdf","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:uu-198787","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-198787","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":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":89,"referenced_works":["https://openalex.org/W107156070","https://openalex.org/W1510523291","https://openalex.org/W1596459374","https://openalex.org/W1689369637","https://openalex.org/W1881807356","https://openalex.org/W1920973730","https://openalex.org/W1930153672","https://openalex.org/W1930635754","https://openalex.org/W1940924634","https://openalex.org/W1962052762","https://openalex.org/W1963602582","https://openalex.org/W1972673599","https://openalex.org/W1979674827","https://openalex.org/W1982603712","https://openalex.org/W1982714746","https://openalex.org/W1982906065","https://openalex.org/W1985917880","https://openalex.org/W1987513180","https://openalex.org/W1989007469","https://openalex.org/W1990284991","https://openalex.org/W1992733095","https://openalex.org/W1992834799","https://openalex.org/W2001103208","https://openalex.org/W2004391041","https://openalex.org/W2005342820","https://openalex.org/W2007890023","https://openalex.org/W2014078041","https://openalex.org/W2015039275","https://openalex.org/W2021776752","https://openalex.org/W2024515529","https://openalex.org/W2025777882","https://openalex.org/W2029746887","https://openalex.org/W2032162025","https://openalex.org/W2035454907","https://openalex.org/W2044961839","https://openalex.org/W2045641296","https://openalex.org/W2049473089","https://openalex.org/W2050276404","https://openalex.org/W2060256600","https://openalex.org/W2061646041","https://openalex.org/W2065698973","https://openalex.org/W2076729646","https://openalex.org/W2076845646","https://openalex.org/W2082967251","https://openalex.org/W2083073981","https://openalex.org/W2083605491","https://openalex.org/W2085494643","https://openalex.org/W2087627409","https://openalex.org/W2087700126","https://openalex.org/W2091106301","https://openalex.org/W2091117089","https://openalex.org/W2097040991","https://openalex.org/W2097766886","https://openalex.org/W2098498308","https://openalex.org/W2098708412","https://openalex.org/W2100238259","https://openalex.org/W2101768075","https://openalex.org/W2102029197","https://openalex.org/W2102507175","https://openalex.org/W2106335192","https://openalex.org/W2106894911","https://openalex.org/W2110254760","https://openalex.org/W2110487265","https://openalex.org/W2113699551","https://openalex.org/W2115672772","https://openalex.org/W2116111392","https://openalex.org/W2116668053","https://openalex.org/W2117125696","https://openalex.org/W2120807753","https://openalex.org/W2125685565","https://openalex.org/W2126596016","https://openalex.org/W2128985716","https://openalex.org/W2130315111","https://openalex.org/W2133178637","https://openalex.org/W2134259738","https://openalex.org/W2136247993","https://openalex.org/W2141344219","https://openalex.org/W2144061158","https://openalex.org/W2146120203","https://openalex.org/W2151464048","https://openalex.org/W2154770881","https://openalex.org/W2155627980","https://openalex.org/W2156789190","https://openalex.org/W2161224111","https://openalex.org/W2168909179","https://openalex.org/W2171463101","https://openalex.org/W4292239814","https://openalex.org/W4300196896","https://openalex.org/W7008798990"],"related_works":["https://openalex.org/W2098708412","https://openalex.org/W7096034791","https://openalex.org/W2109844746","https://openalex.org/W2115672772","https://openalex.org/W2076729646","https://openalex.org/W2069183470","https://openalex.org/W7099250062","https://openalex.org/W2142101708","https://openalex.org/W2125383928","https://openalex.org/W7095123056"],"abstract_inverted_index":{"The":[0],"rates":[1,60,270,292],"and":[2,61,120,141,154,169,191,219],"patterns":[3,62,126],"at":[4],"which":[5,36,87],"nucleotide":[6,64,128],"substitutions":[7],"occur":[8],"vary":[9],"significantly":[10],"across":[11],"the":[12,21,24,40,59,67,78,93,98,108,112,118,148,164,170,182,213,223,226,235,253,260,279,285],"genome":[13,99],"sequence":[14],"of":[15,26,28,42,63,81,95,111,122,127,151,158,166,172,215,225,234,255,268,282,284,287],"vertebrates.":[16],"A":[17],"prominent":[18],"example":[19],"is":[20,37,55,74,90,250],"difference":[22],"in":[23,58,83,88,97,124,138,184,205,230,237,242,271,294],"rate":[25,187],"evolution":[27,224,254],"functional":[29,46,272],"sequences":[30,53],"versus":[31],"nonfunctional":[32],"(neutrally":[33],"evolving)":[34],"sequences,":[35],"explained":[38],"by":[39],"influence":[41],"natural":[43,101],"selection":[44,102],"on":[45,222],"sequences.":[47,273],"However,":[48],"even":[49],"within":[50],"neutrally":[51],"evolving":[52],"there":[54],"striking":[56],"variation":[57,73,82,123,183],"substitutions.":[65,129],"Unraveling":[66],"underlying":[68],"processes":[69],"that":[70,144,163,194,247],"induce":[71],"this":[72],"necessary":[75],"to":[76,239,289],"understand":[77],"basic":[79],"principles":[80],"neutral":[84],"substitution":[85,269,291],"profiles,":[86],"turn":[89],"crucial":[91],"for":[92,252],"identification":[94],"regions":[96],"where":[100],"acts.":[103],"This":[104],"research":[105],"question":[106],"builds":[107],"main":[109],"focus":[110],"present":[113],"thesis.":[114],"I":[115,132,179,210,244,263,276],"have":[116,133,180,211,264,277],"studied":[117,212],"causes":[119],"consequences":[121],"different":[125],"In":[130,208],"particular,":[131],"investigated":[134],"substitutional":[135,159],"strand":[136],"asymmetries":[137,160],"mammalian":[139],"genes":[140,190],"could":[142,192],"show":[143,193],"they":[145],"result":[146],"from":[147],"asymmetric":[149],"nature":[150],"DNA":[152,167,196],"replication":[153,168],"transcription.":[155],"Comparative":[156],"analysis":[157],"then":[161],"suggested":[162],"organization":[165],"level":[171],"transcription":[173],"are":[174],"conserved":[175],"among":[176,188],"mammals.":[177],"Further,":[178],"examined":[181],"CpG":[185,206],"mutation":[186],"human":[189,243],"beside":[195,259],"methylation":[197],"also":[198],"GC":[199,227,256],"content":[200],"plays":[201],"a":[202,295],"decisive":[203],"role":[204],"mutability.":[207],"addition,":[209],"signatures":[214],"GC-biased":[216],"gene":[217],"conversion":[218],"its":[220],"impact":[221],"isochore":[228],"structure":[229],"chicken.":[231],"By":[232],"comparison":[233],"results":[236,241],"chicken":[238],"previous":[240],"found":[245],"evidence":[246],"karyotype":[248],"stability":[249],"critical":[251],"isochores.":[257],"Finally,":[258],"empirical":[261],"studies,":[262],"performed":[265],"theoretical":[266],"investigations":[267],"More":[274],"precisely,":[275],"explored":[278],"temporal":[280],"dynamics":[281],"estimates":[283],"ratio":[286],"non-synonymous":[288],"synonymous":[290],"dN/dS":[293],"phylogentic-population":[296],"genetic":[297],"framework.":[298]},"counts_by_year":[],"updated_date":"2026-11-06T12:05:46.655746","created_date":"2016-06-24T00:00:00"}
