{"id":"https://openalex.org/W2145095977","doi":"https://doi.org/10.1186/1471-2105-16-s5-s8","title":"Re-alignment of the unmapped reads with base quality score","display_name":"Re-alignment of the unmapped reads with base quality score","publication_year":2015,"publication_date":"2015-03-18","ids":{"openalex":"https://openalex.org/W2145095977","doi":"https://doi.org/10.1186/1471-2105-16-s5-s8","mag":"2145095977","pmid":"https://pubmed.ncbi.nlm.nih.gov/25860434"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-16-s5-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s5-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S5-S8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S5-S8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103182832","display_name":"Xiaoqing Peng","orcid":"https://orcid.org/0000-0002-4099-5183"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoqing Peng","raw_affiliation_strings":["School of Information Science and Engineering, Central South University, 410083, Changsha, China","[School of Information Science and Engineering, Central South University, ChangSha, China]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Science and Engineering, Central South University, 410083, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"[School of Information Science and Engineering, Central South University, ChangSha, China]","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100438360","display_name":"Jianxin Wang","orcid":"https://orcid.org/0000-0003-1516-0480"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jianxin Wang","raw_affiliation_strings":["School of Information Science and Engineering, Central South University, 410083, Changsha, China","[School of Information Science and Engineering, Central South University, ChangSha, China]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Science and Engineering, Central South University, 410083, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"[School of Information Science and Engineering, Central South University, ChangSha, China]","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020698638","display_name":"Zhen Zhang","orcid":"https://orcid.org/0000-0002-2974-5781"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhen Zhang","raw_affiliation_strings":["School of Information Science and Engineering, Central South University, 410083, Changsha, China","[School of Information Science and Engineering, Central South University, ChangSha, China]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Science and Engineering, Central South University, 410083, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"[School of Information Science and Engineering, Central South University, ChangSha, China]","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009250609","display_name":"Qianghua Xiao","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qianghua Xiao","raw_affiliation_strings":["School of Information Science and Engineering, Central South University, 410083, Changsha, China","[School of Information Science and Engineering, Central South University, ChangSha, China]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Science and Engineering, Central South University, 410083, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"[School of Information Science and Engineering, Central South University, ChangSha, China]","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100719013","display_name":"Min Li","orcid":"https://orcid.org/0000-0002-0188-1394"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Min Li","raw_affiliation_strings":["School of Information Science and Engineering, Central South University, 410083, Changsha, China","[School of Information Science and Engineering, Central South University, ChangSha, China]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Science and Engineering, Central South University, 410083, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"[School of Information Science and Engineering, Central South University, ChangSha, China]","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101465265","display_name":"Yi Pan","orcid":"https://orcid.org/0000-0002-2766-3096"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]},{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Yi Pan","raw_affiliation_strings":["Department of Computer Science, Georgia State University, 30302-4110, Atlanta, USA","School of Information Science and Engineering, Central South University, 410083, Changsha, China","Department of Computer Science, Georgia State University, Atlanta, USA","School of Information Science and Engineering, Central South University, Changsha, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, 30302-4110, Atlanta, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"School of Information Science and Engineering, Central South University, 410083, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"School of Information Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100438360"],"corresponding_institution_ids":["https://openalex.org/I139660479"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":{"value":2990,"currency":"USD","value_usd":2990},"fwci":1.1008,"has_fulltext":true,"cited_by_count":22,"citation_normalized_percentile":{"value":0.77002389,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"16","issue":"S5","first_page":"S8","last_page":"S8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9829000234603882,"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":0.9829000234603882,"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":0.002199999988079071,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.00139999995008111,"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":0.6763913631439209},{"id":"https://openalex.org/keywords/reference-genome","display_name":"Reference genome","score":0.5974072217941284},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5154703259468079},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4365798234939575},{"id":"https://openalex.org/keywords/base","display_name":"Base (topology)","score":0.42333510518074036},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.40586191415786743},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3736012578010559},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3391219675540924},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16991707682609558},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14425763487815857},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.10104256868362427}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6763913631439209},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.5974072217941284},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5154703259468079},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4365798234939575},{"id":"https://openalex.org/C42058472","wikidata":"https://www.wikidata.org/wiki/Q810214","display_name":"Base (topology)","level":2,"score":0.42333510518074036},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.40586191415786743},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3736012578010559},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3391219675540924},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16991707682609558},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14425763487815857},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10104256868362427},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","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":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","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":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","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":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1186/1471-2105-16-s5-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s5-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S5-S8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25860434","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25860434","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":"BMC bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4402702","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4402702","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-16-s5-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s5-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S5-S8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2145095977.pdf","grobid_xml":"https://content.openalex.org/works/W2145095977.grobid-xml"},"referenced_works_count":26,"referenced_works":["https://openalex.org/W1965856472","https://openalex.org/W1972907109","https://openalex.org/W2012016911","https://openalex.org/W2039486775","https://openalex.org/W2061008984","https://openalex.org/W2072193858","https://openalex.org/W2090705041","https://openalex.org/W2093458624","https://openalex.org/W2093931624","https://openalex.org/W2095680943","https://openalex.org/W2097341408","https://openalex.org/W2103441770","https://openalex.org/W2107233609","https://openalex.org/W2112113834","https://openalex.org/W2119923823","https://openalex.org/W2121016876","https://openalex.org/W2124985265","https://openalex.org/W2131813051","https://openalex.org/W2132341951","https://openalex.org/W2139747296","https://openalex.org/W2139760555","https://openalex.org/W2153805608","https://openalex.org/W2157539385","https://openalex.org/W2161488606","https://openalex.org/W2247766769","https://openalex.org/W4394666350"],"related_works":["https://openalex.org/W2921363728","https://openalex.org/W2279684808","https://openalex.org/W3217304749","https://openalex.org/W2894932706","https://openalex.org/W2066142713","https://openalex.org/W2767606877","https://openalex.org/W3140471545","https://openalex.org/W4223446368","https://openalex.org/W4232517363","https://openalex.org/W3214020344"],"abstract_inverted_index":{"MOTIVATION:":[0],"Based":[1],"on":[2,198,266],"the":[3,19,23,45,59,64,71,74,84,97,106,119,131,136,151,157,162,169,174,180,193,221,242,245,259,267,276,286,293],"next":[4],"generation":[5],"genome":[6,295],"sequencing":[7,24],"technologies,":[8],"a":[9,126,236],"variety":[10],"of":[11,66,96,100,150,168,176,192,248,289],"biological":[12],"applications":[13],"are":[14,26,50,80,301],"developed,":[15],"while":[16],"alignment":[17,107,144,186,224,253,260,290],"is":[18,282],"first":[20],"step":[21],"once":[22],"reads":[25,43,53,75,137,171,214,256],"obtained.":[27],"In":[28],"recent":[29],"years,":[30],"many":[31,52,213],"software":[32],"tools":[33,225,291],"have":[34],"been":[35],"developed":[36],"to":[37,44,58,63,134,159,217,257,284],"efficiently":[38],"and":[39,165,202,227,244,270],"accurately":[40],"align":[41],"short":[42],"reference":[46,60],"genome.":[47],"However,":[48],"there":[49],"still":[51],"that":[54,138,212],"can't":[55],"be":[56,109,116,141,218,230],"mapped":[57,142],"genome,":[61],"due":[62],"exceeding":[65],"allowable":[67],"mismatches.":[68],"Moreover,":[69],"besides":[70],"unmapped":[72,170],"reads,":[73,102],"with":[76,184,205,235,241],"low":[77],"mapping":[78],"qualities":[79],"also":[81,112,263],"excluded":[82],"from":[83],"downstream":[85,120],"analysis,":[86],"such":[87],"as":[88],"variance":[89],"calling.":[90],"If":[91],"we":[92],"can":[93,105,139,229],"take":[94],"advantages":[95,149,265],"confident":[98,164],"segments":[99,167,191],"these":[101,190],"not":[103,140],"only":[104],"rates":[108],"improved,":[110],"but":[111],"more":[113],"information":[114],"will":[115],"provided":[117],"for":[118,254,292],"analysis.":[121],"RESULTS:":[122],"This":[123],"paper":[124],"proposes":[125],"method,":[127],"called":[128],"RAUR":[129,188,197,262,281],"(Re-align":[130],"Unmapped":[132],"Reads),":[133],"re-align":[135,189],"by":[143,156,172,220,233],"tools.":[145],"Firstly,":[146],"it":[147],"takes":[148],"base":[152],"quality":[153],"scores":[154],"(reported":[155],"sequencer)":[158],"figure":[160],"out":[161],"most":[163,222],"informative":[166],"controlling":[173],"number":[175],"possible":[177],"mismatches":[178],"in":[179,272,280],"alignment.":[181],"Then,":[182],"combined":[183],"an":[185],"tool,":[187],"reads.":[194],"We":[195],"run":[196],"both":[199],"simulated":[200],"data":[201,204],"real":[203],"different":[206],"read":[207],"lengths.":[208],"The":[209],"results":[210],"show":[211],"which":[215,250],"fail":[216],"aligned":[219],"popular":[223],"(BWA":[226],"Bowtie2)":[228],"correctly":[231],"re-aligned":[232],"RAUR,":[234],"similar":[237],"Precision.":[238],"Even":[239],"compared":[240],"BWA-MEM":[243],"local":[246,252],"mode":[247],"Bowtie2,":[249],"perform":[251],"long":[255],"improve":[258,285],"rate,":[261],"shows":[264],"Alignment":[268,287],"rate":[269,288],"Precision":[271],"some":[273],"cases.":[274],"Therefore,":[275],"trimming":[277],"strategy":[278],"used":[279],"useful":[283],"next-generation":[294],"sequencing.":[296],"AVAILABILITY:":[297],"All":[298],"source":[299],"code":[300],"available":[302],"at":[303],"http://netlab.csu.edu.cn/bioinformatics/RAUR.html.":[304]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":7},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
