{"id":"https://openalex.org/W2141654654","doi":"https://doi.org/10.1093/nar/gkn648","title":"CleanEST: a database of cleansed EST libraries","display_name":"CleanEST: a database of cleansed EST libraries","publication_year":2008,"publication_date":"2008-10-02","ids":{"openalex":"https://openalex.org/W2141654654","doi":"https://doi.org/10.1093/nar/gkn648","mag":"2141654654","pmid":"https://pubmed.ncbi.nlm.nih.gov/18832365"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkn648","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn648","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_1/D686/3217131/gkn648.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/37/suppl_1/D686/3217131/gkn648.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5090404247","display_name":"Bang Yeon Lee","orcid":"https://orcid.org/0000-0002-7823-8663"},"institutions":[{"id":"https://openalex.org/I157485424","display_name":"Korea Advanced Institute of Science and Technology","ror":"https://ror.org/05apxxy63","country_code":"KR","type":"education","lineage":["https://openalex.org/I157485424"]},{"id":"https://openalex.org/I73616290","display_name":"Korea Research Institute of Bioscience and Biotechnology","ror":"https://ror.org/03ep23f07","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210144908","https://openalex.org/I4387152098","https://openalex.org/I73616290"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"B. Lee","raw_affiliation_strings":["Korean BioInformation Center, KRIBB, Daejeon 305-817, Korea. bulee@kribb.re.kr","Korean BioInformation Center, KRIBB, Daejeon 305-817 and 2Department of Bio and Brain Engineering, KAIST, Daejeon 305-701, Korea"],"affiliations":[{"raw_affiliation_string":"Korean BioInformation Center, KRIBB, Daejeon 305-817, Korea. bulee@kribb.re.kr","institution_ids":["https://openalex.org/I73616290"]},{"raw_affiliation_string":"Korean BioInformation Center, KRIBB, Daejeon 305-817 and 2Department of Bio and Brain Engineering, KAIST, Daejeon 305-701, Korea","institution_ids":["https://openalex.org/I73616290","https://openalex.org/I157485424"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067505500","display_name":"Gyungin Shin","orcid":"https://orcid.org/0000-0003-1793-665X"},"institutions":[{"id":"https://openalex.org/I157485424","display_name":"Korea Advanced Institute of Science and Technology","ror":"https://ror.org/05apxxy63","country_code":"KR","type":"education","lineage":["https://openalex.org/I157485424"]},{"id":"https://openalex.org/I73616290","display_name":"Korea Research Institute of Bioscience and Biotechnology","ror":"https://ror.org/03ep23f07","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210144908","https://openalex.org/I4387152098","https://openalex.org/I73616290"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"G. Shin","raw_affiliation_strings":["Korean BioInformation Center, KRIBB, Daejeon 305-817 and 2Department of Bio and Brain Engineering, KAIST, Daejeon 305-701, Korea"],"affiliations":[{"raw_affiliation_string":"Korean BioInformation Center, KRIBB, Daejeon 305-817 and 2Department of Bio and Brain Engineering, KAIST, Daejeon 305-701, Korea","institution_ids":["https://openalex.org/I73616290","https://openalex.org/I157485424"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5090404247"],"corresponding_institution_ids":["https://openalex.org/I157485424","https://openalex.org/I73616290"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.965,"has_fulltext":true,"cited_by_count":13,"citation_normalized_percentile":{"value":0.75163978,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"37","issue":"Database","first_page":"D686","last_page":"D689"},"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/T11879","display_name":"Protist diversity and phylogeny","score":0.994700014591217,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9887999892234802,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genbank","display_name":"GenBank","score":0.7996476888656616},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.5475841164588928},{"id":"https://openalex.org/keywords/terminology","display_name":"Terminology","score":0.4711433947086334},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4231383800506592},{"id":"https://openalex.org/keywords/expressed-sequence-tag","display_name":"Expressed sequence tag","score":0.42035767436027527},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3813287019729614},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3378294110298157},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.24776145815849304},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2221001386642456},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15647485852241516}],"concepts":[{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.7996476888656616},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.5475841164588928},{"id":"https://openalex.org/C547195049","wikidata":"https://www.wikidata.org/wiki/Q1725664","display_name":"Terminology","level":2,"score":0.4711433947086334},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4231383800506592},{"id":"https://openalex.org/C149034497","wikidata":"https://www.wikidata.org/wiki/Q1384835","display_name":"Expressed sequence tag","level":4,"score":0.42035767436027527},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3813287019729614},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3378294110298157},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.24776145815849304},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2221001386642456},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15647485852241516},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015723","descriptor_name":"Gene Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015723","descriptor_name":"Gene Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015723","descriptor_name":"Gene Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020224","descriptor_name":"Expressed Sequence Tags","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020224","descriptor_name":"Expressed Sequence Tags","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020224","descriptor_name":"Expressed Sequence Tags","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkn648","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn648","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_1/D686/3217131/gkn648.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:18832365","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18832365","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:http://repository.kribb.re.kr:8080/:201005/8768","is_oa":false,"landing_page_url":"http://doi.org/10.1093/nar/gkn648","pdf_url":null,"source":{"id":"https://openalex.org/S4406922719","display_name":"KRIBB Repository","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":"/dspace/upload/original/7988.pdf","raw_type":"Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2686460","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2686460","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkn648","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn648","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_1/D686/3217131/gkn648.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320322110","display_name":"Korea Research Institute of Bioscience and Biotechnology","ror":"https://ror.org/03ep23f07"},{"id":"https://openalex.org/F4320322349","display_name":"Ministry of Education, Science and Technology","ror":"https://ror.org/01p262204"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2141654654.pdf","grobid_xml":"https://content.openalex.org/works/W2141654654.grobid-xml"},"referenced_works_count":22,"referenced_works":["https://openalex.org/W1523309563","https://openalex.org/W1552419803","https://openalex.org/W1992685092","https://openalex.org/W1997954369","https://openalex.org/W2041956242","https://openalex.org/W2053927782","https://openalex.org/W2074538482","https://openalex.org/W2087064593","https://openalex.org/W2101972919","https://openalex.org/W2104086373","https://openalex.org/W2107903949","https://openalex.org/W2109348952","https://openalex.org/W2112616522","https://openalex.org/W2118675686","https://openalex.org/W2121016876","https://openalex.org/W2124943423","https://openalex.org/W2138740633","https://openalex.org/W2140450495","https://openalex.org/W2152545090","https://openalex.org/W2782267736","https://openalex.org/W4230932396","https://openalex.org/W4251079740"],"related_works":["https://openalex.org/W3034803574","https://openalex.org/W253490991","https://openalex.org/W2515671908","https://openalex.org/W2946505882","https://openalex.org/W2352864340","https://openalex.org/W1443061357","https://openalex.org/W2375071235","https://openalex.org/W2393887791","https://openalex.org/W3141223289","https://openalex.org/W4232934035"],"abstract_inverted_index":{"The":[0,156],"EST":[1,25,82,118],"division":[2],"of":[3,18,24,47,117,145],"GenBank,":[4],"dbEST,":[5],"is":[6,31,158,165],"widely":[7],"used":[8,37],"in":[9,27,113,142],"many":[10],"applications":[11],"such":[12],"as":[13],"gene":[14],"discovery":[15],"and":[16,43,62,73,86,104,128,162],"verification":[17],"exon-intron":[19],"structure.":[20],"However,":[21],"the":[22,28,40,45,163],"use":[23],"sequences":[26,112,119,144],"dbEST":[29,60,68,95,114],"libraries":[30,61,69,83],"often":[32],"hampered":[33],"by":[34,44,84,115],"inconsistent":[35],"terminology":[36],"to":[38,71,90,153],"describe":[39,52],"library":[41,148],"sources":[42],"presence":[46],"contaminated":[48],"sequences.":[49],"Here,":[50],"we":[51,78,97,110,136],"CleanEST,":[53],"a":[54,146],"novel":[55],"database":[56,164],"server":[57,157],"that":[58],"classified":[59,66,80],"removes":[63],"contaminants.":[64],"We":[65],"all":[67],"according":[70,89,152],"species":[72],"sequencing":[74],"center.":[75],"In":[76],"addition,":[77],"further":[79],"human":[81],"anatomical":[85],"pathological":[87],"systems":[88],"eVOC":[91],"ontologies.":[92],"For":[93],"each":[94],"library,":[96],"provide":[98,133],"two":[99],"different":[100],"cleansed":[101,111,150],"sequences:":[102],"'pre-cleansed'":[103],"'user-cleansed'.":[105],"To":[106,132],"generate":[107],"pre-cleansed":[108],"sequences,":[109,135],"alignment":[116],"against":[120],"well-known":[121],"contamination":[122],"sources:":[123],"UniVec,":[124],"Escherichia":[125],"coli,":[126],"mitochondria":[127],"chloroplast":[129],"(for":[130],"plant).":[131],"user-cleansed":[134],"built":[137],"an":[138],"automatic":[139],"user-cleansing":[140],"pipeline,":[141],"which":[143],"user-selected":[147,154],"are":[149],"on-the-fly":[151],"options.":[155],"available":[159],"at":[160],"http://cleanest.kobic.re.kr/":[161],"updated":[166],"monthly.":[167]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
