{"id":"https://openalex.org/W2105765411","doi":"https://doi.org/10.1093/bioinformatics/btq677","title":"SlideSort: all pairs similarity search for short reads","display_name":"SlideSort: all pairs similarity search for short reads","publication_year":2010,"publication_date":"2010-12-09","ids":{"openalex":"https://openalex.org/W2105765411","doi":"https://doi.org/10.1093/bioinformatics/btq677","mag":"2105765411","pmid":"https://pubmed.ncbi.nlm.nih.gov/21148542"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq677","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq677","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/4/464/48866115/bioinformatics_27_4_464.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/27/4/464/48866115/bioinformatics_27_4_464.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043657069","display_name":"Kana Shimizu","orcid":"https://orcid.org/0000-0001-6452-9091"},"institutions":[{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]},{"id":"https://openalex.org/I4210086780","display_name":"Japan Science and Technology Agency","ror":"https://ror.org/00097mb19","country_code":"JP","type":"government","lineage":["https://openalex.org/I4210086780"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Kana Shimizu","raw_affiliation_strings":["1 Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology (AIST) and 2ERATO Minato Project, Japan Science and Technology Agency, Japan"],"affiliations":[{"raw_affiliation_string":"1 Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology (AIST) and 2ERATO Minato Project, Japan Science and Technology Agency, Japan","institution_ids":["https://openalex.org/I4210086780","https://openalex.org/I73613424"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5070597006","display_name":"Koji Tsuda","orcid":"https://orcid.org/0000-0002-4288-1606"},"institutions":[{"id":"https://openalex.org/I4210086780","display_name":"Japan Science and Technology Agency","ror":"https://ror.org/00097mb19","country_code":"JP","type":"government","lineage":["https://openalex.org/I4210086780"]},{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Koji Tsuda","raw_affiliation_strings":["1 Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology (AIST) and 2ERATO Minato Project, Japan Science and Technology Agency, Japan"],"affiliations":[{"raw_affiliation_string":"1 Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology (AIST) and 2ERATO Minato Project, Japan Science and Technology Agency, Japan","institution_ids":["https://openalex.org/I4210086780","https://openalex.org/I73613424"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5043657069"],"corresponding_institution_ids":["https://openalex.org/I4210086780","https://openalex.org/I73613424"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.4066,"has_fulltext":true,"cited_by_count":25,"citation_normalized_percentile":{"value":0.63607634,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"27","issue":"4","first_page":"464","last_page":"470"},"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/T11269","display_name":"Algorithms and Data Compression","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9857000112533569,"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/executable","display_name":"Executable","score":0.7630505561828613},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7598423957824707},{"id":"https://openalex.org/keywords/edit-distance","display_name":"Edit distance","score":0.7320184111595154},{"id":"https://openalex.org/keywords/string","display_name":"String (physics)","score":0.6122691035270691},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5422817468643188},{"id":"https://openalex.org/keywords/string-searching-algorithm","display_name":"String searching algorithm","score":0.47882822155952454},{"id":"https://openalex.org/keywords/backtracking","display_name":"Backtracking","score":0.44158270955085754},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.384605348110199},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37246173620224},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3581485152244568},{"id":"https://openalex.org/keywords/pattern-matching","display_name":"Pattern matching","score":0.24281266331672668},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14947718381881714},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13810387253761292}],"concepts":[{"id":"https://openalex.org/C160145156","wikidata":"https://www.wikidata.org/wiki/Q778586","display_name":"Executable","level":2,"score":0.7630505561828613},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7598423957824707},{"id":"https://openalex.org/C44359876","wikidata":"https://www.wikidata.org/wiki/Q5338467","display_name":"Edit distance","level":2,"score":0.7320184111595154},{"id":"https://openalex.org/C157486923","wikidata":"https://www.wikidata.org/wiki/Q1376436","display_name":"String (physics)","level":2,"score":0.6122691035270691},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5422817468643188},{"id":"https://openalex.org/C7757238","wikidata":"https://www.wikidata.org/wiki/Q374040","display_name":"String searching algorithm","level":3,"score":0.47882822155952454},{"id":"https://openalex.org/C156884757","wikidata":"https://www.wikidata.org/wiki/Q798554","display_name":"Backtracking","level":2,"score":0.44158270955085754},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.384605348110199},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37246173620224},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3581485152244568},{"id":"https://openalex.org/C68859911","wikidata":"https://www.wikidata.org/wiki/Q1503724","display_name":"Pattern matching","level":2,"score":0.24281266331672668},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14947718381881714},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13810387253761292},{"id":"https://openalex.org/C37914503","wikidata":"https://www.wikidata.org/wiki/Q156495","display_name":"Mathematical physics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btq677","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq677","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/4/464/48866115/bioinformatics_27_4_464.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21148542","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21148542","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},{"id":"pmh:oai:pubmedcentral.nih.gov:3035798","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3035798","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btq677","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq677","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/4/464/48866115/bioinformatics_27_4_464.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.44999998807907104,"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure"}],"awards":[{"id":"https://openalex.org/G2256499016","display_name":null,"funder_award_id":"Grant-in-Aid for Young Scientists (","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G2614447905","display_name":"In-silico prediction of active comformations by machine learning","funder_award_id":"21680025","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G3236194794","display_name":null,"funder_award_id":"Grant-in-Aid","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G3348058139","display_name":null,"funder_award_id":"Grant-in-Aid for Young Scien","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G3459562248","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G4326377893","display_name":"\u5c71\u5cb3\u50be\u659c\u5730\u306b\u304a\u3051\u308b\u6851\u840e\u7e2e\u75c5\u306e\u8a98\u767a\u306a\u3089\u3073\u306b\u62b5\u6297\u6027\u306b\u95a2\u3059\u308b\u7814\u7a76(\u7d992\u5e74)","funder_award_id":"68002","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G4367772926","display_name":null,"funder_award_id":"Grant-in-Aid for Young Scientists","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G4874944895","display_name":null,"funder_award_id":"-in-Aid","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G6202562253","display_name":"Developing fast algorithm for analyzing Giga-sequence data","funder_award_id":"22700319","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G7126264696","display_name":null,"funder_award_id":"FIRST","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G7331231273","display_name":"\u96fb\u5b50\u7fa9\u624b\u306e\u88fd\u4f5c\u306b\u95a2\u3059\u308b\u7814\u7a76","funder_award_id":"70031","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G7447333459","display_name":"\u5973\u5b50\u4e2d\u5b66\u751f\u306e\u4f53\u578b\u306e\u8ffd\u8de1\u7814\u7a76","funder_award_id":"168002","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G7752643416","display_name":null,"funder_award_id":"Japan","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2105765411.pdf","grobid_xml":"https://content.openalex.org/works/W2105765411.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W108464071","https://openalex.org/W1486659038","https://openalex.org/W1513400187","https://openalex.org/W1532325895","https://openalex.org/W1583518118","https://openalex.org/W1784600267","https://openalex.org/W1807439634","https://openalex.org/W1965680834","https://openalex.org/W1966822396","https://openalex.org/W2017927472","https://openalex.org/W2029195137","https://openalex.org/W2064853889","https://openalex.org/W2097065948","https://openalex.org/W2097341408","https://openalex.org/W2097862362","https://openalex.org/W2103441770","https://openalex.org/W2115482638","https://openalex.org/W2117945751","https://openalex.org/W2124985265","https://openalex.org/W2134283755","https://openalex.org/W2148103646","https://openalex.org/W2160969485","https://openalex.org/W2168303240","https://openalex.org/W2171475724","https://openalex.org/W2790300107","https://openalex.org/W4213009331","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2007540612","https://openalex.org/W2399644331","https://openalex.org/W2482057383","https://openalex.org/W1604047596","https://openalex.org/W1593185626","https://openalex.org/W2151836590","https://openalex.org/W2050554337","https://openalex.org/W2054882906","https://openalex.org/W2405436873","https://openalex.org/W52396946"],"abstract_inverted_index":{"Executable":[0],"binary":[1],"files":[2],"and":[3,12],"C++":[4],"libraries":[5],"are":[6],"available":[7],"at":[8],"http://www.cbrc.jp/~shimizu/slidesort/":[9],"for":[10],"Linux":[11],"Windows.":[13]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":2},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-16T08:26:57.006410","created_date":"2025-10-10T00:00:00"}