{"id":"https://openalex.org/W2760168505","doi":"https://doi.org/10.1093/bioinformatics/btx751","title":"The systematic analysis of ultraconserved genomic regions in the budding yeast","display_name":"The systematic analysis of ultraconserved genomic regions in the budding yeast","publication_year":2017,"publication_date":"2017-11-24","ids":{"openalex":"https://openalex.org/W2760168505","doi":"https://doi.org/10.1093/bioinformatics/btx751","mag":"2760168505","pmid":"https://pubmed.ncbi.nlm.nih.gov/29186332"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx751","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx751","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/1/180/25113705/btx751.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"erratum","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/1/180/25113705/btx751.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5107220026","display_name":"Zhikai Yang","orcid":"https://orcid.org/0000-0001-6104-5083"},"institutions":[{"id":"https://openalex.org/I4210129994","display_name":"SinoGenoMax (China)","ror":"https://ror.org/02xfgyt86","country_code":"CN","type":"company","lineage":["https://openalex.org/I4210129994"]},{"id":"https://openalex.org/I162868743","display_name":"Tianjin University","ror":"https://ror.org/012tb2g32","country_code":"CN","type":"education","lineage":["https://openalex.org/I162868743"]},{"id":"https://openalex.org/I2801663168","display_name":"Chinese National Human Genome Center","ror":"https://ror.org/01wq93z70","country_code":"CN","type":"facility","lineage":["https://openalex.org/I2801663168"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Zhi-Kai Yang","raw_affiliation_strings":["Department of Physics, Tianjin University, Tianjin, China","SinoGenoMax Co., Ltd./Chinese National Human Genome Center, Beijing, China"],"affiliations":[{"raw_affiliation_string":"Department of Physics, Tianjin University, Tianjin, China","institution_ids":["https://openalex.org/I162868743"]},{"raw_affiliation_string":"SinoGenoMax Co., Ltd./Chinese National Human Genome Center, Beijing, China","institution_ids":["https://openalex.org/I2801663168","https://openalex.org/I4210129994"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5074242312","display_name":"Feng Gao","orcid":"https://orcid.org/0000-0002-9563-3841"},"institutions":[{"id":"https://openalex.org/I4210151209","display_name":"Collaborative Innovation Center of Chemical Science and Engineering Tianjin","ror":"https://ror.org/0225a5s12","country_code":"CN","type":"facility","lineage":["https://openalex.org/I162868743","https://openalex.org/I205237279","https://openalex.org/I4210151209"]},{"id":"https://openalex.org/I162868743","display_name":"Tianjin University","ror":"https://ror.org/012tb2g32","country_code":"CN","type":"education","lineage":["https://openalex.org/I162868743"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Feng Gao","raw_affiliation_strings":["SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin University, Tianjin, China"],"affiliations":[{"raw_affiliation_string":"SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin University, Tianjin, China","institution_ids":["https://openalex.org/I4210151209","https://openalex.org/I162868743"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5107220026"],"corresponding_institution_ids":["https://openalex.org/I4210129994","https://openalex.org/I162868743","https://openalex.org/I2801663168"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.13361471,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.48951154,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"34","issue":"1","first_page":"180","last_page":"180"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10497","display_name":"Fungal and yeast genetics research","score":0.9994999766349792,"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/T10497","display_name":"Fungal and yeast genetics research","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9991000294685364,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9983999729156494,"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/genome","display_name":"Genome","score":0.7356816530227661},{"id":"https://openalex.org/keywords/budding-yeast","display_name":"Budding yeast","score":0.7112568020820618},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.6846886873245239},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6844626069068909},{"id":"https://openalex.org/keywords/saccharomyces-cerevisiae","display_name":"Saccharomyces cerevisiae","score":0.6747500896453857},{"id":"https://openalex.org/keywords/adaptation","display_name":"Adaptation (eye)","score":0.6147127151489258},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5513465404510498},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4891064763069153},{"id":"https://openalex.org/keywords/yeast","display_name":"Yeast","score":0.4072544574737549},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.3552365303039551},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3346807658672333},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.33241960406303406}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7356816530227661},{"id":"https://openalex.org/C2992884146","wikidata":"https://www.wikidata.org/wiki/Q719725","display_name":"Budding yeast","level":4,"score":0.7112568020820618},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.6846886873245239},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6844626069068909},{"id":"https://openalex.org/C2777576037","wikidata":"https://www.wikidata.org/wiki/Q719725","display_name":"Saccharomyces cerevisiae","level":3,"score":0.6747500896453857},{"id":"https://openalex.org/C139807058","wikidata":"https://www.wikidata.org/wiki/Q352374","display_name":"Adaptation (eye)","level":2,"score":0.6147127151489258},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5513465404510498},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4891064763069153},{"id":"https://openalex.org/C2779222958","wikidata":"https://www.wikidata.org/wiki/Q45422","display_name":"Yeast","level":2,"score":0.4072544574737549},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.3552365303039551},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3346807658672333},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.33241960406303406},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btx751","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx751","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/1/180/25113705/btx751.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:29186332","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29186332","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx751","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx751","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/1/180/25113705/btx751.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Life in Land","score":0.6299999952316284,"id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2760168505.pdf","grobid_xml":"https://content.openalex.org/works/W2760168505.grobid-xml"},"referenced_works_count":53,"referenced_works":["https://openalex.org/W1965976637","https://openalex.org/W1970070225","https://openalex.org/W1971846931","https://openalex.org/W1979914496","https://openalex.org/W1987122345","https://openalex.org/W1990533032","https://openalex.org/W1991155924","https://openalex.org/W1995340594","https://openalex.org/W1996760543","https://openalex.org/W1998745514","https://openalex.org/W2003644115","https://openalex.org/W2005189737","https://openalex.org/W2008856488","https://openalex.org/W2020754890","https://openalex.org/W2027716098","https://openalex.org/W2042881722","https://openalex.org/W2044539436","https://openalex.org/W2055043387","https://openalex.org/W2056698109","https://openalex.org/W2057143081","https://openalex.org/W2059513841","https://openalex.org/W2062478949","https://openalex.org/W2082121926","https://openalex.org/W2085560179","https://openalex.org/W2091448229","https://openalex.org/W2100990361","https://openalex.org/W2102992354","https://openalex.org/W2113140044","https://openalex.org/W2124013343","https://openalex.org/W2129162844","https://openalex.org/W2130008571","https://openalex.org/W2133465414","https://openalex.org/W2133579817","https://openalex.org/W2138167095","https://openalex.org/W2139947577","https://openalex.org/W2141052558","https://openalex.org/W2141152740","https://openalex.org/W2143820120","https://openalex.org/W2145065899","https://openalex.org/W2152207030","https://openalex.org/W2155606054","https://openalex.org/W2157550210","https://openalex.org/W2159360736","https://openalex.org/W2160378127","https://openalex.org/W2161044909","https://openalex.org/W2168909179","https://openalex.org/W2169313735","https://openalex.org/W2170392103","https://openalex.org/W2334956771","https://openalex.org/W2409873232","https://openalex.org/W2413180764","https://openalex.org/W2595700476","https://openalex.org/W2620988622"],"related_works":["https://openalex.org/W2028107853","https://openalex.org/W2464479560","https://openalex.org/W1982584572","https://openalex.org/W4232406862","https://openalex.org/W2001703407","https://openalex.org/W2528336156","https://openalex.org/W2397070560","https://openalex.org/W2979355489","https://openalex.org/W2169256639","https://openalex.org/W2077905048"],"abstract_inverted_index":{"Motivation":[0],"In":[1],"the":[2,30,37,40,62,67,79,85,100,107,113,121,129,141,147,152,160,182,187],"evolution":[3],"of":[4,8,57,84,109,149,166],"species,":[5],"a":[6,54],"kind":[7],"special":[9],"sequences,":[10,71],"termed":[11],"ultraconserved":[12,58],"sequences":[13,25,48],"(UCSs),":[14],"have":[15],"been":[16],"inherited":[17],"without":[18],"any":[19],"change,":[20],"which":[21,116],"strongly":[22],"suggests":[23],"those":[24],"should":[26],"be":[27],"crucial":[28],"for":[29],"species":[31],"to":[32,36,74,95,112,158,181],"survive":[33],"or":[34,81],"adapt":[35],"environment.":[38],"However,":[39],"UCSs":[41,101,167],"are":[42,133,200],"still":[43],"regarded":[44],"as":[45,140],"mysterious":[46],"genetic":[47],"so":[49],"far.":[50],"Here,":[51],"we":[52,126],"present":[53],"systematic":[55],"study":[56],"genomic":[59],"regions":[60],"in":[61,72,93,106,135,168],"budding":[63,86],"yeast":[64],"based":[65],"on":[66,177,192],"publicly":[68],"available":[69,191,201],"genome":[70],"order":[73],"reveal":[75],"their":[76],"relationship":[77],"with":[78],"adaptability":[80],"fitness":[82],"advantages":[83],"yeast.":[87],"Results":[88],"Our":[89],"results":[90],"indicate":[91],"that,":[92,125],"addition":[94],"some":[96,136],"fundamental":[97],"biological":[98],"functions,":[99],"play":[102],"an":[103],"important":[104],"role":[105],"adaptation":[108],"Saccharomyces":[110],"cerevisiae":[111],"acidic":[114],"environment,":[115],"is":[117,190],"backed":[118],"up":[119],"by":[120],"previous":[122],"observation.":[123],"Besides":[124],"also":[127],"find":[128],"highly":[130],"unchanged":[131],"genes":[132],"enriched":[134],"other":[137],"pathways,":[138],"such":[139],"nutrient-sensitive":[142],"signaling":[143],"pathway.":[144],"To":[145],"facilitate":[146],"investigation":[148],"unique":[150],"UCSs,":[151,178],"UCSC":[153],"Genome":[154],"Browser":[155],"was":[156],"utilized":[157],"visualize":[159],"chromosomal":[161],"position":[162],"and":[163,172,186],"related":[164],"annotations":[165],"S.cerevisiae":[169],"genome.":[170],"Availability":[171],"implementation":[173],"For":[174],"more":[175],"details":[176],"please":[179],"refer":[180],"Supplementary":[183,196,198],"information":[184,197],"online,":[185],"custom":[188],"code":[189],"request.":[193],"Contact":[194],"fgao@tju.edu.cn.":[195],"data":[199],"at":[202],"Bioinformatics":[203],"online.":[204]},"counts_by_year":[{"year":2018,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
