{"id":"https://openalex.org/W2767874009","doi":"https://doi.org/10.1093/bioinformatics/btx717","title":"RepLong: <i>de novo</i> repeat identification using long read sequencing data","display_name":"RepLong: <i>de novo</i> repeat identification using long read sequencing data","publication_year":2017,"publication_date":"2017-11-04","ids":{"openalex":"https://openalex.org/W2767874009","doi":"https://doi.org/10.1093/bioinformatics/btx717","mag":"2767874009","pmid":"https://pubmed.ncbi.nlm.nih.gov/29126180"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx717","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx717","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/7/1099/25119588/btx717.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/34/7/1099/25119588/btx717.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100753429","display_name":"Rui Guo","orcid":"https://orcid.org/0000-0003-2907-0718"},"institutions":[{"id":"https://openalex.org/I180726961","display_name":"Shenzhen University","ror":"https://ror.org/01vy4gh70","country_code":"CN","type":"education","lineage":["https://openalex.org/I180726961"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Rui Guo","raw_affiliation_strings":["College of Computer Science and Software Engineering, Shenzhen University, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Software Engineering, Shenzhen University, Shenzhen, China","institution_ids":["https://openalex.org/I180726961"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113932631","display_name":"Yan-Ran Li","orcid":null},"institutions":[{"id":"https://openalex.org/I180726961","display_name":"Shenzhen University","ror":"https://ror.org/01vy4gh70","country_code":"CN","type":"education","lineage":["https://openalex.org/I180726961"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan-Ran Li","raw_affiliation_strings":["College of Computer Science and Software Engineering, Shenzhen University, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Software Engineering, Shenzhen University, Shenzhen, China","institution_ids":["https://openalex.org/I180726961"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011186506","display_name":"Shan He","orcid":"https://orcid.org/0000-0003-1694-1465"},"institutions":[{"id":"https://openalex.org/I12870472","display_name":"Birmingham City University","ror":"https://ror.org/00t67pt25","country_code":"GB","type":"education","lineage":["https://openalex.org/I12870472"]},{"id":"https://openalex.org/I79619799","display_name":"University of Birmingham","ror":"https://ror.org/03angcq70","country_code":"GB","type":"education","lineage":["https://openalex.org/I79619799"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Shan He","raw_affiliation_strings":["Centre for Computational Biology, School of Biosciences, University of Birmingham, Birmingham, UK","School of Computer Science, University of Birmingham, Birmingham, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Computational Biology, School of Biosciences, University of Birmingham, Birmingham, UK","institution_ids":["https://openalex.org/I79619799","https://openalex.org/I12870472"]},{"raw_affiliation_string":"School of Computer Science, University of Birmingham, Birmingham, UK","institution_ids":["https://openalex.org/I79619799"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030129372","display_name":"Le Ou-Yang","orcid":"https://orcid.org/0000-0003-4007-4568"},"institutions":[{"id":"https://openalex.org/I180726961","display_name":"Shenzhen University","ror":"https://ror.org/01vy4gh70","country_code":"CN","type":"education","lineage":["https://openalex.org/I180726961"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Le Ou-Yang","raw_affiliation_strings":["College of Information Science, Shenzhen University, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Information Science, Shenzhen University, Shenzhen, China","institution_ids":["https://openalex.org/I180726961"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015217863","display_name":"Yiwen Sun","orcid":"https://orcid.org/0000-0003-0506-7899"},"institutions":[{"id":"https://openalex.org/I180726961","display_name":"Shenzhen University","ror":"https://ror.org/01vy4gh70","country_code":"CN","type":"education","lineage":["https://openalex.org/I180726961"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yiwen Sun","raw_affiliation_strings":["School of Medicine, Shenzhen University, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Medicine, Shenzhen University, Shenzhen, China","institution_ids":["https://openalex.org/I180726961"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052762681","display_name":"Zexuan Zhu","orcid":"https://orcid.org/0000-0001-8479-6904"},"institutions":[{"id":"https://openalex.org/I180726961","display_name":"Shenzhen University","ror":"https://ror.org/01vy4gh70","country_code":"CN","type":"education","lineage":["https://openalex.org/I180726961"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Zexuan Zhu","raw_affiliation_strings":["College of Computer Science and Software Engineering, Shenzhen University, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Software Engineering, Shenzhen University, Shenzhen, China","institution_ids":["https://openalex.org/I180726961"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5015217863","https://openalex.org/A5052762681"],"corresponding_institution_ids":["https://openalex.org/I180726961"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.7095,"has_fulltext":true,"cited_by_count":41,"citation_normalized_percentile":{"value":0.69159369,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"34","issue":"7","first_page":"1099","last_page":"1107"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.8457000255584717,"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":0.8457000255584717,"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/T10949","display_name":"Genetic Neurodegenerative Diseases","score":0.06750000268220901,"subfield":{"id":"https://openalex.org/subfields/2804","display_name":"Cellular and Molecular Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.005799999926239252,"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/identification","display_name":"Identification (biology)","score":0.6518623232841492},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.534139096736908},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5053203701972961},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.4533606469631195},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3216089904308319},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.28994035720825195},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.13666823506355286}],"concepts":[{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6518623232841492},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.534139096736908},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5053203701972961},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.4533606469631195},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3216089904308319},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.28994035720825195},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.13666823506355286},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012091","descriptor_name":"Repetitive Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012091","descriptor_name":"Repetitive Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012091","descriptor_name":"Repetitive Sequences, Nucleic Acid","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":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btx717","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx717","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/7/1099/25119588/btx717.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:29126180","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29126180","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:pure.atira.dk:Publications/3cd07f81-6371-4316-80b3-ab0fa5cab6ae","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306402634","display_name":"University of Birmingham Research Portal (University of Birmingham)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79619799","host_organization_name":"University of Birmingham","host_organization_lineage":["https://openalex.org/I79619799"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":""},{"id":"pmh:oai:pure.atira.dk:openaire_cris_publications/3cd07f81-6371-4316-80b3-ab0fa5cab6ae","is_oa":true,"landing_page_url":"https://research.birmingham.ac.uk/en/publications/3cd07f81-6371-4316-80b3-ab0fa5cab6ae","pdf_url":null,"source":{"id":"https://openalex.org/S4306402634","display_name":"University of Birmingham Research Portal (University of Birmingham)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79619799","host_organization_name":"University of Birmingham","host_organization_lineage":["https://openalex.org/I79619799"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Guo, R, Li, Y-R, He, S, Ou-Yang, L, Sun, Y & Zhu, Z 2017, 'RepLong - de novo repeat identification using long read sequencing data', Bioinformatics. https://doi.org/10.1093/bioinformatics/btx717","raw_type":"article"},{"id":"pmh:oai:pure.atira.dk:publications/3cd07f81-6371-4316-80b3-ab0fa5cab6ae","is_oa":false,"landing_page_url":"https://research.birmingham.ac.uk/portal/en/publications/replong--de-novo-repeat-identification-using-long-read-sequencing-data(3cd07f81-6371-4316-80b3-ab0fa5cab6ae).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306402634","display_name":"University of Birmingham Research Portal (University of Birmingham)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79619799","host_organization_name":"University of Birmingham","host_organization_lineage":["https://openalex.org/I79619799"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":""}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx717","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx717","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/7/1099/25119588/btx717.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":[],"awards":[{"id":"https://openalex.org/G3164240202","display_name":null,"funder_award_id":"61575125","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4434048650","display_name":null,"funder_award_id":"61602309","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7858415135","display_name":null,"funder_award_id":"61471246, 61602309, 61575125","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8413540691","display_name":"\u57fa\u4e8e\u9ad8\u901a\u91cfRNA-Seq\u548c\u591a\u76ee\u6807\u534f\u540c\u6f14\u5316\u6a21\u56e0\u8ba1\u7b97\u7684\u75be\u75c5\u6a21\u5757\u8bc6\u522b\u7814\u7a76","funder_award_id":"61471246","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"},{"id":"https://openalex.org/F4320329791","display_name":"Shenzhen Fundamental Research Program","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2767874009.pdf","grobid_xml":"https://content.openalex.org/works/W2767874009.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W143174683","https://openalex.org/W1565608089","https://openalex.org/W1579534339","https://openalex.org/W1941316604","https://openalex.org/W1971421925","https://openalex.org/W1974640383","https://openalex.org/W2014704298","https://openalex.org/W2046137036","https://openalex.org/W2055043387","https://openalex.org/W2070328439","https://openalex.org/W2071501400","https://openalex.org/W2088568198","https://openalex.org/W2103441770","https://openalex.org/W2105009154","https://openalex.org/W2109293112","https://openalex.org/W2122954888","https://openalex.org/W2123933193","https://openalex.org/W2127048411","https://openalex.org/W2129581281","https://openalex.org/W2131346206","https://openalex.org/W2131681506","https://openalex.org/W2132341951","https://openalex.org/W2137455182","https://openalex.org/W2144268209","https://openalex.org/W2148966210","https://openalex.org/W2150781353","https://openalex.org/W2151899848","https://openalex.org/W2151936673","https://openalex.org/W2168909179","https://openalex.org/W2300605489","https://openalex.org/W2497752945","https://openalex.org/W2538143681","https://openalex.org/W3104267360"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W2013243191","https://openalex.org/W2151865869"],"abstract_inverted_index":{"Motivation:":[0],"The":[1,14,242],"identification":[2,19,66,91,233],"of":[3,24,92,100,118,128,135,207,244],"repetitive":[4],"elements":[5,65,94],"is":[6,47,95,162,246],"important":[7],"in":[8,29,115,178,209],"genome":[9],"assembly":[10],"and":[11,144,193,201,219,240],"phylogenetic":[12],"analyses.":[13],"existing":[15,227],"de":[16,62],"novo":[17,63],"repeat":[18,41,64,82,93,186,232],"methods":[20,203,228],"exploiting":[21],"the":[22,77,81,90,98,116,136,152,157,165,185,205,226,231],"use":[23],"short":[25],"reads":[26,35,46,78,177],"are":[27,36,84,168,181,259],"impotent":[28],"identifying":[30,210],"long":[31,34,45,52,73,195,211],"repeats.":[32,53,212],"Since":[33],"more":[37,48],"likely":[38],"to":[39,80,97,183,225,229],"cover":[40],"regions":[42,83],"completely,":[43],"using":[44],"favorable":[49],"for":[50],"recognizing":[51],"Results:":[54],"In":[55,121],"this":[56],"study,":[57],"we":[58,123],"propose":[59],"a":[60,111,126,142,148,222],"novel":[61],"method":[67],"namely":[68],"RepLong":[69,208,213,245],"based":[70,131,170],"on":[71,132,171,190,235],"PacBio":[72],"reads.":[74,155],"Given":[75],"that":[76],"mapped":[79],"highly":[85],"overlapped":[86],"with":[87,199],"each":[88,139,179],"other,":[89],"equivalent":[96],"discovery":[99],"consensus":[101],"overlaps":[102,130],"between":[103,151],"reads,":[104,137],"which":[105],"can":[106,214],"be":[107],"further":[108],"cast":[109],"into":[110],"community":[112,180],"detection":[113],"problem":[114],"network":[117,127,172],"read":[119,129,143,196],"overlaps.":[120],"RepLong,":[122],"first":[124],"construct":[125],"pair-wise":[133],"alignment":[134],"where":[138],"vertex":[140],"indicates":[141,147],"an":[145],"edge":[146],"substantial":[149],"overlap":[150],"corresponding":[153],"two":[154],"Secondly,":[156],"communities":[158],"whose":[159],"intra":[160],"connectivity":[161,167],"greater":[163],"than":[164],"inter":[166],"extracted":[169,182],"modularity":[173],"optimization.":[174],"Finally,":[175],"representative":[176],"form":[184],"library.":[187],"Comparison":[188],"studies":[189],"Drosophila":[191],"melanogaster":[192],"human":[194],"sequencing":[197,237],"data":[198,218,258],"genome-based":[200],"short-read-based":[202],"demonstrate":[204],"efficiency":[206],"handle":[215],"lower":[216],"coverage":[217],"serve":[220],"as":[221],"complementary":[223],"solution":[224],"promote":[230],"performance":[234],"long-read":[236],"data.":[238],"Availability":[239],"implementation:":[241],"software":[243],"freely":[247],"available":[248,260],"at":[249,261],"https://github.com/ruiguo-bio/replong.":[250],"Contact:":[251],"ywsun@szu.edu.cn":[252],"or":[253],"zhuzx@szu.edu.cn.":[254],"Supplementary":[255,257],"information:":[256],"Bioinformatics":[262],"online.":[263]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":9},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":2}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2017-11-17T00:00:00"}