{"id":"https://openalex.org/W2121716038","doi":"https://doi.org/10.1093/bioinformatics/btu856","title":"Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping","display_name":"Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping","publication_year":2015,"publication_date":"2015-01-10","ids":{"openalex":"https://openalex.org/W2121716038","doi":"https://doi.org/10.1093/bioinformatics/btu856","mag":"2121716038","pmid":"https://pubmed.ncbi.nlm.nih.gov/25577434"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu856","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu856","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/10/1553/49013086/bioinformatics_31_10_1553.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/31/10/1553/49013086/bioinformatics_31_10_1553.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5087925176","display_name":"Hongyi Xin","orcid":"https://orcid.org/0000-0003-2864-7386"},"institutions":[{"id":"https://openalex.org/I168864056","display_name":"Bilkent University","ror":"https://ror.org/02vh8a032","country_code":"TR","type":"education","lineage":["https://openalex.org/I168864056"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["TR","US"],"is_corresponding":true,"raw_author_name":"Hongyi Xin","raw_affiliation_strings":["1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey"],"affiliations":[{"raw_affiliation_string":"1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey","institution_ids":["https://openalex.org/I168864056","https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063834809","display_name":"John Greth","orcid":null},"institutions":[{"id":"https://openalex.org/I168864056","display_name":"Bilkent University","ror":"https://ror.org/02vh8a032","country_code":"TR","type":"education","lineage":["https://openalex.org/I168864056"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["TR","US"],"is_corresponding":false,"raw_author_name":"John Greth","raw_affiliation_strings":["1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey"],"affiliations":[{"raw_affiliation_string":"1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey","institution_ids":["https://openalex.org/I168864056","https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083366663","display_name":"John Emmons","orcid":null},"institutions":[{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]},{"id":"https://openalex.org/I168864056","display_name":"Bilkent University","ror":"https://ror.org/02vh8a032","country_code":"TR","type":"education","lineage":["https://openalex.org/I168864056"]}],"countries":["TR","US"],"is_corresponding":false,"raw_author_name":"John Emmons","raw_affiliation_strings":["1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey"],"affiliations":[{"raw_affiliation_string":"1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey","institution_ids":["https://openalex.org/I168864056","https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007585346","display_name":"Gennady Pekhimenko","orcid":"https://orcid.org/0000-0002-3839-0919"},"institutions":[{"id":"https://openalex.org/I168864056","display_name":"Bilkent University","ror":"https://ror.org/02vh8a032","country_code":"TR","type":"education","lineage":["https://openalex.org/I168864056"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["TR","US"],"is_corresponding":false,"raw_author_name":"Gennady Pekhimenko","raw_affiliation_strings":["1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey"],"affiliations":[{"raw_affiliation_string":"1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey","institution_ids":["https://openalex.org/I168864056","https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113653378","display_name":"Carl Kingsford","orcid":null},"institutions":[{"id":"https://openalex.org/I168864056","display_name":"Bilkent University","ror":"https://ror.org/02vh8a032","country_code":"TR","type":"education","lineage":["https://openalex.org/I168864056"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["TR","US"],"is_corresponding":false,"raw_author_name":"Carl Kingsford","raw_affiliation_strings":["1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey"],"affiliations":[{"raw_affiliation_string":"1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey","institution_ids":["https://openalex.org/I168864056","https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074885623","display_name":"Can Alkan","orcid":"https://orcid.org/0000-0002-5443-0706"},"institutions":[{"id":"https://openalex.org/I168864056","display_name":"Bilkent University","ror":"https://ror.org/02vh8a032","country_code":"TR","type":"education","lineage":["https://openalex.org/I168864056"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["TR","US"],"is_corresponding":false,"raw_author_name":"Can Alkan","raw_affiliation_strings":["1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey"],"affiliations":[{"raw_affiliation_string":"1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey","institution_ids":["https://openalex.org/I168864056","https://openalex.org/I74973139"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050695684","display_name":"Onur Mutlu","orcid":"https://orcid.org/0000-0002-0075-2312"},"institutions":[{"id":"https://openalex.org/I168864056","display_name":"Bilkent University","ror":"https://ror.org/02vh8a032","country_code":"TR","type":"education","lineage":["https://openalex.org/I168864056"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["TR","US"],"is_corresponding":false,"raw_author_name":"Onur Mutlu","raw_affiliation_strings":["1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey"],"affiliations":[{"raw_affiliation_string":"1 Computer Science Department, 2Department of Electrical and Computer Engineering, 3Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA and 4Department of Computer Engineering, Bilkent University, Bilkent, Ankara 06800, Turkey","institution_ids":["https://openalex.org/I168864056","https://openalex.org/I74973139"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5087925176"],"corresponding_institution_ids":["https://openalex.org/I168864056","https://openalex.org/I74973139"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.8109,"has_fulltext":true,"cited_by_count":96,"citation_normalized_percentile":{"value":0.85125202,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"31","issue":"10","first_page":"1553","last_page":"1560"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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":0.998199999332428,"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":0.995199978351593,"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/computer-science","display_name":"Computer science","score":0.7921915054321289},{"id":"https://openalex.org/keywords/edit-distance","display_name":"Edit distance","score":0.7016441822052002},{"id":"https://openalex.org/keywords/string","display_name":"String (physics)","score":0.6501816511154175},{"id":"https://openalex.org/keywords/hamming-distance","display_name":"Hamming distance","score":0.6440281271934509},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5867059826850891},{"id":"https://openalex.org/keywords/filter","display_name":"Filter (signal processing)","score":0.5416442155838013},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5356634855270386},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.5321345329284668},{"id":"https://openalex.org/keywords/simd","display_name":"SIMD","score":0.47035908699035645},{"id":"https://openalex.org/keywords/error-detection-and-correction","display_name":"Error detection and correction","score":0.4355716109275818},{"id":"https://openalex.org/keywords/string-searching-algorithm","display_name":"String searching algorithm","score":0.43255022168159485},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.41838011145591736},{"id":"https://openalex.org/keywords/pattern-matching","display_name":"Pattern matching","score":0.17796331644058228},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.14139848947525024},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.14125165343284607}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7921915054321289},{"id":"https://openalex.org/C44359876","wikidata":"https://www.wikidata.org/wiki/Q5338467","display_name":"Edit distance","level":2,"score":0.7016441822052002},{"id":"https://openalex.org/C157486923","wikidata":"https://www.wikidata.org/wiki/Q1376436","display_name":"String (physics)","level":2,"score":0.6501816511154175},{"id":"https://openalex.org/C193319292","wikidata":"https://www.wikidata.org/wiki/Q272172","display_name":"Hamming distance","level":2,"score":0.6440281271934509},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5867059826850891},{"id":"https://openalex.org/C106131492","wikidata":"https://www.wikidata.org/wiki/Q3072260","display_name":"Filter (signal processing)","level":2,"score":0.5416442155838013},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5356634855270386},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.5321345329284668},{"id":"https://openalex.org/C150552126","wikidata":"https://www.wikidata.org/wiki/Q339387","display_name":"SIMD","level":2,"score":0.47035908699035645},{"id":"https://openalex.org/C103088060","wikidata":"https://www.wikidata.org/wiki/Q1062839","display_name":"Error detection and correction","level":2,"score":0.4355716109275818},{"id":"https://openalex.org/C7757238","wikidata":"https://www.wikidata.org/wiki/Q374040","display_name":"String searching algorithm","level":3,"score":0.43255022168159485},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.41838011145591736},{"id":"https://openalex.org/C68859911","wikidata":"https://www.wikidata.org/wiki/Q1503724","display_name":"Pattern matching","level":2,"score":0.17796331644058228},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.14139848947525024},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.14125165343284607},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C37914503","wikidata":"https://www.wikidata.org/wiki/Q156495","display_name":"Mathematical physics","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":"D000465","descriptor_name":"Algorithms","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":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"D001483","descriptor_name":"Base Sequence","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","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":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","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":"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":5,"locations":[{"id":"doi:10.1093/bioinformatics/btu856","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu856","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/10/1553/49013086/bioinformatics_31_10_1553.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:25577434","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25577434","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:open-archive.highwire.org:bioinfo:31/10/1553","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/31/10/1553","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:4426831","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4426831","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"},{"id":"pmh:oai:repository.bilkent.edu.tr:11693/25347","is_oa":false,"landing_page_url":"http://hdl.handle.net/11693/25347","pdf_url":null,"source":{"id":"https://openalex.org/S4306400079","display_name":"Bilkent University Institutional Repository (Bilkent University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I168864056","host_organization_name":"Bilkent University","host_organization_lineage":["https://openalex.org/I168864056"],"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":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu856","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu856","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/10/1553/49013086/bioinformatics_31_10_1553.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":"Responsible consumption and production","id":"https://metadata.un.org/sdg/12","score":0.4000000059604645}],"awards":[{"id":"https://openalex.org/G4539561046","display_name":null,"funder_award_id":"HG006004","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6569375368","display_name":null,"funder_award_id":"HG007104","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2121716038.pdf","grobid_xml":"https://content.openalex.org/works/W2121716038.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1828154403","https://openalex.org/W1891398339","https://openalex.org/W1994263888","https://openalex.org/W2011652244","https://openalex.org/W2013976859","https://openalex.org/W2016219933","https://openalex.org/W2038686775","https://openalex.org/W2075996757","https://openalex.org/W2087064593","https://openalex.org/W2096791516","https://openalex.org/W2097341408","https://openalex.org/W2100751585","https://openalex.org/W2103441770","https://openalex.org/W2114794895","https://openalex.org/W2119305840","https://openalex.org/W2124362779","https://openalex.org/W2132484969","https://openalex.org/W2133687564","https://openalex.org/W2139747296","https://openalex.org/W2146379626","https://openalex.org/W2151672054","https://openalex.org/W2152331922","https://openalex.org/W2153527981","https://openalex.org/W2155445544","https://openalex.org/W2161488606","https://openalex.org/W2166081493","https://openalex.org/W2167470356","https://openalex.org/W2170551349","https://openalex.org/W2171777347","https://openalex.org/W2885727518","https://openalex.org/W4247053599","https://openalex.org/W6683504902"],"related_works":["https://openalex.org/W1494289317","https://openalex.org/W1531307672","https://openalex.org/W2611868502","https://openalex.org/W2399644331","https://openalex.org/W2180288160","https://openalex.org/W2165259681","https://openalex.org/W2482057383","https://openalex.org/W3129463312","https://openalex.org/W162676011","https://openalex.org/W2612888708"],"abstract_inverted_index":{"We":[0],"present":[1],"a":[2,42,67],"simple":[3],"and":[4,29],"efficient":[5],"algorithm,":[6],"Shifted":[7],"Hamming":[8],"Distance":[9],"(SHD),":[10],"which":[11],"accelerates":[12],"the":[13,62,71],"alignment":[14,88],"verification":[15],"procedure":[16],"in":[17],"read":[18],"mapping,":[19],"by":[20],"quickly":[21],"filtering":[22],"out":[23],"error-abundant":[24],"sequence":[25,87],"pairs":[26,36],"using":[27],"bit-parallel":[28],"SIMD-parallel":[30],"operations.":[31],"SHD":[32,79],"only":[33],"filters":[34],"string":[35,63],"that":[37,85],"contain":[38],"more":[39],"errors":[40],"than":[41],"user-defined":[43],"threshold,":[44],"making":[45],"it":[46],"fully":[47],"comprehensive.":[48],"It":[49],"also":[50],"maintains":[51],"high":[52],"accuracy":[53],"with":[54,82],"moderate":[55],"error":[56],"threshold":[57],"(up":[58],"to":[59],"5%":[60],"of":[61],"length)":[64],"while":[65],"achieving":[66],"3-fold":[68],"speedup":[69],"over":[70],"best":[72],"previous":[73],"algorithm":[74],"(Gene":[75],"Myers's":[76],"bit-vector":[77],"algorithm).":[78],"is":[80],"compatible":[81],"all":[83],"mappers":[84],"perform":[86],"for":[89],"verification.":[90]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":9},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":16},{"year":2021,"cited_by_count":15},{"year":2020,"cited_by_count":11},{"year":2019,"cited_by_count":11},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
