{"id":"https://openalex.org/W4391141451","doi":"https://doi.org/10.1093/gpbjnl/qzae008","title":"Pindel-TD: A Tandem Duplication Detector Based on A Pattern Growth Approach","display_name":"Pindel-TD: A Tandem Duplication Detector Based on A Pattern Growth Approach","publication_year":2024,"publication_date":"2024-01-22","ids":{"openalex":"https://openalex.org/W4391141451","doi":"https://doi.org/10.1093/gpbjnl/qzae008","pmid":"https://pubmed.ncbi.nlm.nih.gov/38862430"},"language":"en","primary_location":{"id":"doi:10.1093/gpbjnl/qzae008","is_oa":true,"landing_page_url":"https://doi.org/10.1093/gpbjnl/qzae008","pdf_url":"https://academic.oup.com/gpb/advance-article-pdf/doi/10.1093/gpbjnl/qzae008/56334809/qzae008.pdf","source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/gpb/advance-article-pdf/doi/10.1093/gpbjnl/qzae008/56334809/qzae008.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070230762","display_name":"Xiaofei Yang","orcid":"https://orcid.org/0000-0002-5118-7755"},"institutions":[{"id":"https://openalex.org/I4210121771","display_name":"First Affiliated Hospital of Xi'an Jiaotong University","ror":"https://ror.org/02tbvhh96","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210121771"]},{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaofei Yang","raw_affiliation_strings":["Center for Mathematical Medical, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","Genome Institute, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","School of Computer Science and Technology, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","Genome Institute, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","Center for Mathematical Medical, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","School of Computer Science and Technology, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China"],"affiliations":[{"raw_affiliation_string":"Center for Mathematical Medical, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"Genome Institute, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"Genome Institute, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"Center for Mathematical Medical, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5093770670","display_name":"Gaoyang Zheng","orcid":"https://orcid.org/0000-0002-0854-5481"},"institutions":[{"id":"https://openalex.org/I4210121771","display_name":"First Affiliated Hospital of Xi'an Jiaotong University","ror":"https://ror.org/02tbvhh96","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210121771"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Gaoyang Zheng","raw_affiliation_strings":["Center for Mathematical Medical, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","Genome Institute, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","Center for Mathematical Medical, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","Genome Institute, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China"],"affiliations":[{"raw_affiliation_string":"Center for Mathematical Medical, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"Genome Institute, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"Center for Mathematical Medical, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"Genome Institute, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","institution_ids":["https://openalex.org/I4210121771"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087950121","display_name":"Peng Jia","orcid":"https://orcid.org/0000-0002-3429-919X"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Peng Jia","raw_affiliation_strings":["MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China"],"affiliations":[{"raw_affiliation_string":"MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101460007","display_name":"Songbo Wang","orcid":"https://orcid.org/0000-0003-4482-8128"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Songbo Wang","raw_affiliation_strings":["MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China"],"affiliations":[{"raw_affiliation_string":"MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5032548139","display_name":"Kai Ye","orcid":"https://orcid.org/0000-0002-2851-6741"},"institutions":[{"id":"https://openalex.org/I121797337","display_name":"Leiden University","ror":"https://ror.org/027bh9e22","country_code":"NL","type":"education","lineage":["https://openalex.org/I121797337"]},{"id":"https://openalex.org/I210716285","display_name":"University of Applied Sciences Leiden","ror":"https://ror.org/0093src13","country_code":"NL","type":"education","lineage":["https://openalex.org/I210716285"]},{"id":"https://openalex.org/I4210121771","display_name":"First Affiliated Hospital of Xi'an Jiaotong University","ror":"https://ror.org/02tbvhh96","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210121771"]},{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN","NL"],"is_corresponding":false,"raw_author_name":"Kai Ye","raw_affiliation_strings":["Center for Mathematical Medical, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","Faculty of Science, Leiden University , Leiden 2311 EZ,","Genome Institute, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","School of Life Science and Technology, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","Faculty of Science, Leiden University, Leiden, 2311 EZ, Netherland","Genome Institute, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","Center for Mathematical Medical, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, China","School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China"],"affiliations":[{"raw_affiliation_string":"Center for Mathematical Medical, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"Faculty of Science, Leiden University , Leiden 2311 EZ,","institution_ids":["https://openalex.org/I210716285","https://openalex.org/I121797337"]},{"raw_affiliation_string":"Genome Institute, the First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi\u2019an 710061,","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Life Science and Technology, Xi\u2019an Jiaotong University , Xi\u2019an 710049,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"Faculty of Science, Leiden University, Leiden, 2311 EZ, Netherland","institution_ids":["https://openalex.org/I121797337"]},{"raw_affiliation_string":"Genome Institute, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"Center for Mathematical Medical, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061, China","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049, China","institution_ids":["https://openalex.org/I87445476"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5070230762"],"corresponding_institution_ids":["https://openalex.org/I4210121771","https://openalex.org/I87445476"],"apc_list":{"value":3500,"currency":"USD","value_usd":3500},"apc_paid":{"value":3500,"currency":"USD","value_usd":3500},"fwci":0.7069,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.69078539,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"22","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12162","display_name":"Cellular Automata and Applications","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T12162","display_name":"Cellular Automata and Applications","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/T12029","display_name":"DNA and Biological Computing","score":0.9984999895095825,"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":0.9794999957084656,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/tandem","display_name":"Tandem","score":0.7487794756889343},{"id":"https://openalex.org/keywords/gene-duplication","display_name":"Gene duplication","score":0.6997016668319702},{"id":"https://openalex.org/keywords/tandem-exon-duplication","display_name":"Tandem exon duplication","score":0.6791200637817383},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49706342816352844},{"id":"https://openalex.org/keywords/detector","display_name":"Detector","score":0.4707632064819336},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.37574586272239685},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2833268940448761},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20662906765937805},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.1568615734577179},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08033543825149536},{"id":"https://openalex.org/keywords/telecommunications","display_name":"Telecommunications","score":0.06774049997329712}],"concepts":[{"id":"https://openalex.org/C2777814067","wikidata":"https://www.wikidata.org/wiki/Q1752317","display_name":"Tandem","level":2,"score":0.7487794756889343},{"id":"https://openalex.org/C7602840","wikidata":"https://www.wikidata.org/wiki/Q746284","display_name":"Gene duplication","level":3,"score":0.6997016668319702},{"id":"https://openalex.org/C156446351","wikidata":"https://www.wikidata.org/wiki/Q7682435","display_name":"Tandem exon duplication","level":4,"score":0.6791200637817383},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49706342816352844},{"id":"https://openalex.org/C94915269","wikidata":"https://www.wikidata.org/wiki/Q1834857","display_name":"Detector","level":2,"score":0.4707632064819336},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.37574586272239685},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2833268940448761},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20662906765937805},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.1568615734577179},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08033543825149536},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.06774049997329712},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"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":"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":"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":"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":"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":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/gpbjnl/qzae008","is_oa":true,"landing_page_url":"https://doi.org/10.1093/gpbjnl/qzae008","pdf_url":"https://academic.oup.com/gpb/advance-article-pdf/doi/10.1093/gpbjnl/qzae008/56334809/qzae008.pdf","source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38862430","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38862430","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":"Genomics, proteomics & bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11425056","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11425056","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11425056/pdf/qzae008.pdf","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Genomics Proteomics Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/gpbjnl/qzae008","is_oa":true,"landing_page_url":"https://doi.org/10.1093/gpbjnl/qzae008","pdf_url":"https://academic.oup.com/gpb/advance-article-pdf/doi/10.1093/gpbjnl/qzae008/56334809/qzae008.pdf","source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.47999998927116394,"display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G1121271761","display_name":null,"funder_award_id":"Program","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1561453903","display_name":null,"funder_award_id":"32125009","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2087396116","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3085993365","display_name":null,"funder_award_id":"(Grant No.","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G391238517","display_name":null,"funder_award_id":", and","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G564566140","display_name":null,"funder_award_id":"32070663","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5994120800","display_name":null,"funder_award_id":"Natural","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6134535952","display_name":null,"funder_award_id":"62172325","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7726157001","display_name":null,"funder_award_id":"Grant No.","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4391141451.pdf"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W2083870688","https://openalex.org/W2103441770","https://openalex.org/W2111350087","https://openalex.org/W2112814753","https://openalex.org/W2138044148","https://openalex.org/W2146005104","https://openalex.org/W2154397429","https://openalex.org/W2165891191","https://openalex.org/W2194510225","https://openalex.org/W2235737683","https://openalex.org/W2322685558","https://openalex.org/W2787833500","https://openalex.org/W2889545485","https://openalex.org/W2908721251","https://openalex.org/W2947095040","https://openalex.org/W2949575420","https://openalex.org/W2950121474","https://openalex.org/W2953174564","https://openalex.org/W2980310926","https://openalex.org/W2986448893","https://openalex.org/W2994858782","https://openalex.org/W3034581902","https://openalex.org/W3036938386","https://openalex.org/W3041686036","https://openalex.org/W3043041775","https://openalex.org/W3045910546","https://openalex.org/W3048503379","https://openalex.org/W3116380346","https://openalex.org/W3128681620","https://openalex.org/W3130788486","https://openalex.org/W3179290680","https://openalex.org/W3196494885","https://openalex.org/W3198332687","https://openalex.org/W3207563094","https://openalex.org/W4225399233","https://openalex.org/W4295896785","https://openalex.org/W4313250582","https://openalex.org/W4315707394"],"related_works":["https://openalex.org/W1984349060","https://openalex.org/W3185201469","https://openalex.org/W1883409887","https://openalex.org/W2106870860","https://openalex.org/W2120250745","https://openalex.org/W1978469902","https://openalex.org/W3142592327","https://openalex.org/W20477621","https://openalex.org/W84307880","https://openalex.org/W2362053680"],"abstract_inverted_index":{"Tandem":[0],"duplication":[1],"(TD)":[2],"is":[3,73,143],"a":[4,53,67,79,126],"major":[5],"type":[6],"of":[7,43,75,105,133],"structural":[8],"variations":[9],"(SVs)":[10],"that":[11,97],"plays":[12],"an":[13,136],"important":[14],"role":[15],"in":[16,103],"novel":[17],"gene":[18],"formation":[19],"and":[20,89,109],"human":[21],"diseases.":[22],"However,":[23],"TDs":[24,77],"are":[25],"often":[26],"missed":[27],"or":[28],"incorrectly":[29],"classified":[30],"as":[31,63],"insertions":[32],"by":[33,112],"most":[34],"modern":[35],"SV":[36],"detection":[37,55],"methods":[38,102],"due":[39],"to":[40,62,115],"the":[41,58,119,130],"lack":[42],"specialized":[44],"operation":[45],"on":[46,66],"TD-related":[47],"mutational":[48],"signals.":[49],"Herein,":[50],"we":[51,95,124],"developed":[52],"TD":[54,127],"module":[56],"for":[57,138,145],"Pindel":[59],"tool,":[60],"referred":[61],"Pindel-TD,":[64],"based":[65],"TD-specific":[68],"pattern":[69],"growth":[70],"approach.":[71],"Pindel-TD":[72,98,114,142],"capable":[74],"detecting":[76],"with":[78],"wide":[80],"size":[81],"range":[82],"at":[83,129,148],"single":[84],"nucleotide":[85],"resolution.":[86],"Using":[87],"simulated":[88],"real":[90],"read":[91],"data":[92,116],"from":[93,118],"HG002,":[94],"demonstrated":[96],"outperforms":[99],"other":[100],"leading":[101],"terms":[104],"precision,":[106],"recall,":[107],"F1-score,":[108],"robustness.":[110],"Furthermore,":[111],"applying":[113],"generated":[117],"K562":[120],"cancer":[121],"cell":[122],"line,":[123],"identified":[125],"located":[128],"seventh":[131],"exon":[132],"SAGE1,":[134],"providing":[135],"explanation":[137],"its":[139],"high":[140],"expression.":[141],"available":[144],"non-commercial":[146],"use":[147],"https://github.com/xjtu-omics/pindel.":[149]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":1}],"updated_date":"2026-04-13T07:58:08.660418","created_date":"2025-10-10T00:00:00"}
