{"id":"https://openalex.org/W2472096472","doi":"https://doi.org/10.1093/bioinformatics/btw419","title":"sBWT: memory efficient implementation of the hardware-acceleration-friendly Schindler transform for the fast biological sequence mapping","display_name":"sBWT: memory efficient implementation of the hardware-acceleration-friendly Schindler transform for the fast biological sequence mapping","publication_year":2016,"publication_date":"2016-07-13","ids":{"openalex":"https://openalex.org/W2472096472","doi":"https://doi.org/10.1093/bioinformatics/btw419","mag":"2472096472","pmid":"https://pubmed.ncbi.nlm.nih.gov/27412087"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw419","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw419","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/22/3498/16920344/btw419.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":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/22/3498/16920344/btw419.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5016312753","display_name":"Chia-Hua Chang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210100097","display_name":"Institute of Bioinformatics and Systems Biology","ror":"https://ror.org/0127fwn18","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672","https://openalex.org/I4210100097"]},{"id":"https://openalex.org/I4210160384","display_name":"Institute of Biomedical Science","ror":"https://ror.org/05t77d857","country_code":"GB","type":"other","lineage":["https://openalex.org/I4210160384"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]}],"countries":["DE","GB","IN"],"is_corresponding":false,"raw_author_name":"Chia-Hua Chang","raw_affiliation_strings":["1Institute of Bioinformatics and Systems Biology","2Institute of Biomedical Engineering"],"affiliations":[{"raw_affiliation_string":"1Institute of Bioinformatics and Systems Biology","institution_ids":["https://openalex.org/I4210148697","https://openalex.org/I4210100097"]},{"raw_affiliation_string":"2Institute of Biomedical Engineering","institution_ids":["https://openalex.org/I4210160384"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109064223","display_name":"Min-Te Chou","orcid":null},"institutions":[{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I4210100097","display_name":"Institute of Bioinformatics and Systems Biology","ror":"https://ror.org/0127fwn18","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672","https://openalex.org/I4210100097"]}],"countries":["DE","IN"],"is_corresponding":false,"raw_author_name":"Min-Te Chou","raw_affiliation_strings":["1Institute of Bioinformatics and Systems Biology"],"affiliations":[{"raw_affiliation_string":"1Institute of Bioinformatics and Systems Biology","institution_ids":["https://openalex.org/I4210148697","https://openalex.org/I4210100097"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015284227","display_name":"Yi-Chung Wu","orcid":"https://orcid.org/0000-0002-8774-623X"},"institutions":[{"id":"https://openalex.org/I16733864","display_name":"National Taiwan University","ror":"https://ror.org/05bqach95","country_code":"TW","type":"education","lineage":["https://openalex.org/I16733864"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Yi-Chung Wu","raw_affiliation_strings":["4Department of Electrical Engineering, National Taiwan University, Taipei, Taiwan"],"affiliations":[{"raw_affiliation_string":"4Department of Electrical Engineering, National Taiwan University, Taipei, Taiwan","institution_ids":["https://openalex.org/I16733864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034041477","display_name":"Ting-Wei Hong","orcid":null},"institutions":[{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]},{"id":"https://openalex.org/I4210100097","display_name":"Institute of Bioinformatics and Systems Biology","ror":"https://ror.org/0127fwn18","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672","https://openalex.org/I4210100097"]}],"countries":["DE","IN"],"is_corresponding":false,"raw_author_name":"Ting-Wei Hong","raw_affiliation_strings":["1Institute of Bioinformatics and Systems Biology"],"affiliations":[{"raw_affiliation_string":"1Institute of Bioinformatics and Systems Biology","institution_ids":["https://openalex.org/I4210148697","https://openalex.org/I4210100097"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031411444","display_name":"Yun-Lung Li","orcid":null},"institutions":[{"id":"https://openalex.org/I4210100097","display_name":"Institute of Bioinformatics and Systems Biology","ror":"https://ror.org/0127fwn18","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672","https://openalex.org/I4210100097"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]}],"countries":["DE","IN"],"is_corresponding":false,"raw_author_name":"Yun-Lung Li","raw_affiliation_strings":["1Institute of Bioinformatics and Systems Biology"],"affiliations":[{"raw_affiliation_string":"1Institute of Bioinformatics and Systems Biology","institution_ids":["https://openalex.org/I4210148697","https://openalex.org/I4210100097"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101750729","display_name":"Chia\u2010Hsiang Yang","orcid":"https://orcid.org/0000-0003-1163-321X"},"institutions":[{"id":"https://openalex.org/I16733864","display_name":"National Taiwan University","ror":"https://ror.org/05bqach95","country_code":"TW","type":"education","lineage":["https://openalex.org/I16733864"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Chia-Hsiang Yang","raw_affiliation_strings":["4Department of Electrical Engineering, National Taiwan University, Taipei, Taiwan"],"affiliations":[{"raw_affiliation_string":"4Department of Electrical Engineering, National Taiwan University, Taipei, Taiwan","institution_ids":["https://openalex.org/I16733864"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025474727","display_name":"Jui\u2010Hung Hung","orcid":"https://orcid.org/0000-0003-2208-9213"},"institutions":[{"id":"https://openalex.org/I4210160384","display_name":"Institute of Biomedical Science","ror":"https://ror.org/05t77d857","country_code":"GB","type":"other","lineage":["https://openalex.org/I4210160384"]},{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I4210100097","display_name":"Institute of Bioinformatics and Systems Biology","ror":"https://ror.org/0127fwn18","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672","https://openalex.org/I4210100097"]},{"id":"https://openalex.org/I4210148697","display_name":"Institute of Bioinformatics","ror":"https://ror.org/04hqfvm50","country_code":"IN","type":"nonprofit","lineage":["https://openalex.org/I4210148697"]}],"countries":["DE","GB","IN","TW"],"is_corresponding":true,"raw_author_name":"Jui-Hung Hung","raw_affiliation_strings":["1Institute of Bioinformatics and Systems Biology","2Institute of Biomedical Engineering","3Department of Biological Science and Technology, National Chiao Tung University, Hsin-Chu, Taiwan"],"affiliations":[{"raw_affiliation_string":"1Institute of Bioinformatics and Systems Biology","institution_ids":["https://openalex.org/I4210148697","https://openalex.org/I4210100097"]},{"raw_affiliation_string":"2Institute of Biomedical Engineering","institution_ids":["https://openalex.org/I4210160384"]},{"raw_affiliation_string":"3Department of Biological Science and Technology, National Chiao Tung University, Hsin-Chu, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5025474727","https://openalex.org/A5101750729"],"corresponding_institution_ids":["https://openalex.org/I148366613","https://openalex.org/I16733864","https://openalex.org/I4210100097","https://openalex.org/I4210148697","https://openalex.org/I4210160384"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.6669,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.7319014,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"32","issue":"22","first_page":"3498","last_page":"3500"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"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"}},"topics":[{"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"}},{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9983000159263611,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9936000108718872,"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/acceleration","display_name":"Acceleration","score":0.7584859132766724},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.7216282486915588},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7162013649940491},{"id":"https://openalex.org/keywords/hardware-acceleration","display_name":"Hardware acceleration","score":0.6242800951004028},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.5095689296722412},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.46917372941970825},{"id":"https://openalex.org/keywords/computer-hardware","display_name":"Computer hardware","score":0.4609428644180298},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.42316561937332153},{"id":"https://openalex.org/keywords/arithmetic","display_name":"Arithmetic","score":0.3580172061920166},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3441467881202698},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.32753533124923706},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.1672239601612091},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1588071584701538},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.08234834671020508}],"concepts":[{"id":"https://openalex.org/C117896860","wikidata":"https://www.wikidata.org/wiki/Q11376","display_name":"Acceleration","level":2,"score":0.7584859132766724},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.7216282486915588},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7162013649940491},{"id":"https://openalex.org/C13164978","wikidata":"https://www.wikidata.org/wiki/Q600158","display_name":"Hardware acceleration","level":3,"score":0.6242800951004028},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.5095689296722412},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.46917372941970825},{"id":"https://openalex.org/C9390403","wikidata":"https://www.wikidata.org/wiki/Q3966","display_name":"Computer hardware","level":1,"score":0.4609428644180298},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.42316561937332153},{"id":"https://openalex.org/C94375191","wikidata":"https://www.wikidata.org/wiki/Q11205","display_name":"Arithmetic","level":1,"score":0.3580172061920166},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3441467881202698},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.32753533124923706},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.1672239601612091},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1588071584701538},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.08234834671020508},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C74650414","wikidata":"https://www.wikidata.org/wiki/Q11397","display_name":"Classical mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"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":"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":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btw419","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw419","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/22/3498/16920344/btw419.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:27412087","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27412087","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/btw419","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw419","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/22/3498/16920344/btw419.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":[{"score":0.41999998688697815,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G6130654231","display_name":null,"funder_award_id":"103-2221-E-009-128-MY2","funder_id":"https://openalex.org/F4320321040","funder_display_name":"National Science Council"},{"id":"https://openalex.org/G6667543730","display_name":null,"funder_award_id":"104-2311-B-009 -002 -MY3","funder_id":"https://openalex.org/F4320321040","funder_display_name":"National Science Council"}],"funders":[{"id":"https://openalex.org/F4320321040","display_name":"National Science Council","ror":"https://ror.org/02kv4zf79"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2472096472.pdf","grobid_xml":"https://content.openalex.org/works/W2472096472.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1488229309","https://openalex.org/W1505606212","https://openalex.org/W1543263356","https://openalex.org/W1851278799","https://openalex.org/W1906082209","https://openalex.org/W2015831381","https://openalex.org/W2027244654","https://openalex.org/W2031445984","https://openalex.org/W2037748100","https://openalex.org/W2051511420","https://openalex.org/W2058507386","https://openalex.org/W2093516854","https://openalex.org/W2093931624","https://openalex.org/W2100673218","https://openalex.org/W2103441770","https://openalex.org/W2107824361","https://openalex.org/W2115501618","https://openalex.org/W2131106408","https://openalex.org/W2137346250","https://openalex.org/W2149949798","https://openalex.org/W2153183749","https://openalex.org/W2158322625","https://openalex.org/W2169708967","https://openalex.org/W2170551349","https://openalex.org/W2263407306","https://openalex.org/W2494975001","https://openalex.org/W4247053599","https://openalex.org/W6630168666","https://openalex.org/W6683030939","https://openalex.org/W6692951507"],"related_works":["https://openalex.org/W2565094479","https://openalex.org/W2390829436","https://openalex.org/W1989791859","https://openalex.org/W602859758","https://openalex.org/W2006439817","https://openalex.org/W1971289376","https://openalex.org/W2379101322","https://openalex.org/W1992553864","https://openalex.org/W2146872326","https://openalex.org/W3152699334"],"abstract_inverted_index":{"chyee@ntu.edu.tw":[0],"or":[1],"jhhung@nctu.edu.tw":[2],"(also":[3],"juihunghung@gmail.com).":[4]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}