{"id":"https://openalex.org/W3209958248","doi":"https://doi.org/10.1186/s12859-021-04448-2","title":"Filling gaps of genome scaffolds via probabilistic searching optical maps against assembly graph","display_name":"Filling gaps of genome scaffolds via probabilistic searching optical maps against assembly graph","publication_year":2021,"publication_date":"2021-10-30","ids":{"openalex":"https://openalex.org/W3209958248","doi":"https://doi.org/10.1186/s12859-021-04448-2","mag":"3209958248","pmid":"https://pubmed.ncbi.nlm.nih.gov/34717539"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-021-04448-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04448-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04448-2","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/track/pdf/10.1186/s12859-021-04448-2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001103311","display_name":"Bin Huang","orcid":"https://orcid.org/0000-0003-1047-1781"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Bin Huang","raw_affiliation_strings":["Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045275277","display_name":"Guozheng Wei","orcid":null},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guozheng Wei","raw_affiliation_strings":["Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018071319","display_name":"Bing Wang","orcid":"https://orcid.org/0000-0003-1265-9526"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Bing Wang","raw_affiliation_strings":["Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020656041","display_name":"Fusong Ju","orcid":"https://orcid.org/0000-0002-0467-7858"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Fusong Ju","raw_affiliation_strings":["Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057745454","display_name":"Yi Zhong","orcid":"https://orcid.org/0000-0001-6490-1981"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yi Zhong","raw_affiliation_strings":["School of Computer Science, University of Washington, Seattle, 98195, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, University of Washington, Seattle, 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012612330","display_name":"Zhuozheng Shi","orcid":"https://orcid.org/0000-0002-9769-9027"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhuozheng Shi","raw_affiliation_strings":["Department of Computer Science and Engineering, University of California, San Diego, La Jolla, 92093, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, University of California, San Diego, La Jolla, 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108903761","display_name":"Shiwei Sun","orcid":"https://orcid.org/0000-0002-0351-3720"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210091706","display_name":"Henan Academy of Sciences","ror":"https://ror.org/00hy87220","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210091706"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shiwei Sun","raw_affiliation_strings":["Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China","Zhongke Big Data Academy, Zhengzhou, 450046, Henan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Zhongke Big Data Academy, Zhengzhou, 450046, Henan, China","institution_ids":["https://openalex.org/I4210091706"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076729236","display_name":"Dongbo Bu","orcid":"https://orcid.org/0000-0003-4119-4238"},"institutions":[{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I4210091706","display_name":"Henan Academy of Sciences","ror":"https://ror.org/00hy87220","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210091706"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dongbo Bu","raw_affiliation_strings":["Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China. dbu@ict.ac.cn","Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China. dbu@ict.ac.cn","Zhongke Big Data Academy, Zhengzhou, 450046, Henan, China. dbu@ict.ac.cn","Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China"],"raw_orcid":"https://orcid.org/0000-0003-4119-4238","affiliations":[{"raw_affiliation_string":"Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China. dbu@ict.ac.cn","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Key Lab of Intelligent Information Processing, Big-Data Academy, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China. dbu@ict.ac.cn","institution_ids":["https://openalex.org/I4210090176"]},{"raw_affiliation_string":"Zhongke Big Data Academy, Zhengzhou, 450046, Henan, China. dbu@ict.ac.cn","institution_ids":["https://openalex.org/I4210091706"]},{"raw_affiliation_string":"Institute of Biology, University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5001103311"],"corresponding_institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176","https://openalex.org/I4210165038"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.1629,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.50042129,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":"22","issue":"1","first_page":"533","last_page":"533"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5595999956130981,"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":0.5595999956130981,"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/T13664","display_name":"Genome Rearrangement Algorithms","score":0.352400004863739,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.03480000048875809,"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/contig","display_name":"Contig","score":0.8365082740783691},{"id":"https://openalex.org/keywords/heuristics","display_name":"Heuristics","score":0.8051167726516724},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6011223793029785},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5589143633842468},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.5367174744606018},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.5198198556900024},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.4943876266479492},{"id":"https://openalex.org/keywords/path","display_name":"Path (computing)","score":0.4722530245780945},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4707273542881012},{"id":"https://openalex.org/keywords/matching","display_name":"Matching (statistics)","score":0.41382503509521484},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3835504353046417},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.28952473402023315},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2850305736064911},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.17176392674446106},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1397506594657898},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10480067133903503},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08985459804534912}],"concepts":[{"id":"https://openalex.org/C59582021","wikidata":"https://www.wikidata.org/wiki/Q1128751","display_name":"Contig","level":4,"score":0.8365082740783691},{"id":"https://openalex.org/C127705205","wikidata":"https://www.wikidata.org/wiki/Q5748245","display_name":"Heuristics","level":2,"score":0.8051167726516724},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6011223793029785},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5589143633842468},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.5367174744606018},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.5198198556900024},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.4943876266479492},{"id":"https://openalex.org/C2777735758","wikidata":"https://www.wikidata.org/wiki/Q817765","display_name":"Path (computing)","level":2,"score":0.4722530245780945},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4707273542881012},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.41382503509521484},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3835504353046417},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.28952473402023315},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2850305736064911},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.17176392674446106},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1397506594657898},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10480067133903503},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08985459804534912},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"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/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015183","descriptor_name":"Restriction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015183","descriptor_name":"Restriction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015183","descriptor_name":"Restriction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":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":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020451","descriptor_name":"Contig Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020451","descriptor_name":"Contig Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020451","descriptor_name":"Contig Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-021-04448-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04448-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04448-2","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:34717539","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34717539","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":null},{"id":"pmh:oai:doaj.org/article:703c2c27b1fb48eb846fd8ea00a47d3b","is_oa":true,"landing_page_url":"https://doaj.org/article/703c2c27b1fb48eb846fd8ea00a47d3b","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 22, Iss 1, Pp 1-17 (2021)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:7453098","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC8557617","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:8557617","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8557617","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/s12859-021-04448-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04448-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04448-2","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":[{"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15","score":0.4699999988079071}],"awards":[{"id":"https://openalex.org/G4314963621","display_name":null,"funder_award_id":"62072435","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7284023138","display_name":null,"funder_award_id":"31770775","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":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3209958248.pdf","grobid_xml":"https://content.openalex.org/works/W3209958248.grobid-xml"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W1509507167","https://openalex.org/W1974640383","https://openalex.org/W2014286596","https://openalex.org/W2060726880","https://openalex.org/W2065587065","https://openalex.org/W2086253645","https://openalex.org/W2094270919","https://openalex.org/W2105067980","https://openalex.org/W2107772251","https://openalex.org/W2116279310","https://openalex.org/W2118970626","https://openalex.org/W2125984976","https://openalex.org/W2129933858","https://openalex.org/W2131852975","https://openalex.org/W2134800079","https://openalex.org/W2136303928","https://openalex.org/W2136651963","https://openalex.org/W2148931855","https://openalex.org/W2153689534","https://openalex.org/W2157539385","https://openalex.org/W2224150270","https://openalex.org/W2337513885","https://openalex.org/W2396077153","https://openalex.org/W2471897893","https://openalex.org/W2525022860","https://openalex.org/W2610754078","https://openalex.org/W2783742719","https://openalex.org/W2807853583","https://openalex.org/W2808622746","https://openalex.org/W2811512420","https://openalex.org/W2896296657","https://openalex.org/W2906461738","https://openalex.org/W2914149839","https://openalex.org/W2950634744","https://openalex.org/W2997721182","https://openalex.org/W3030739213","https://openalex.org/W3036856417","https://openalex.org/W3095097492","https://openalex.org/W3102786052","https://openalex.org/W3156261638","https://openalex.org/W3195352896"],"related_works":["https://openalex.org/W2089480001","https://openalex.org/W3167837387","https://openalex.org/W2885619582","https://openalex.org/W54719527","https://openalex.org/W4250462852","https://openalex.org/W2944010518","https://openalex.org/W2993223466","https://openalex.org/W2105191441","https://openalex.org/W2763602215","https://openalex.org/W2327661880"],"abstract_inverted_index":{"BACKGROUND:":[0],"Optical":[1],"maps":[2,24,166],"record":[3],"locations":[4],"of":[5,39,63,67,112,117,137,148],"specific":[6],"enzyme":[7],"recognition":[8],"sites":[9],"within":[10],"long":[11,82],"genome":[12,19,51,113,149],"fragments.":[13],"This":[14],"long-distance":[15],"information":[16],"enables":[17],"aligning":[18],"assembly":[20,52],"contigs":[21,27,62],"onto":[22],"optical":[23,118,165],"and":[25,69,93,106,126,146,167,212],"ordering":[26],"into":[28],"scaffolds.":[29,150],"The":[30,65],"generated":[31],"scaffolds,":[32],"however,":[33],"often":[34],"contain":[35],"a":[36,45,155],"large":[37],"amount":[38],"gaps.":[40,64],"To":[41],"fill":[42],"these":[43],"gaps,":[44,83],"feasible":[46],"way":[47],"is":[48,79],"to":[49,109,160,174],"search":[50],"graph":[53],"for":[54,81],"the":[55,134,162,184,196,209,214],"best-matching":[56],"contig":[57,98,169],"paths":[58],"that":[59,190],"connect":[60],"boundary":[61],"combination":[66],"searching":[68,221],"evaluation":[70],"procedures":[71],"might":[72],"be":[73],"\"searching":[74,85,186,197],"followed":[75,198],"by":[76,86,187,199],"evaluation\",":[77,87],"which":[78,88],"infeasible":[80],"or":[84],"heavily":[89],"relies":[90,191],"on":[91,192],"heuristics":[92],"thus":[94,218],"usually":[95],"yields":[96],"unreliable":[97],"paths.":[99,170],"RESULTS:":[100],"We":[101],"here":[102],"report":[103],"an":[104],"accurate":[105],"efficient":[107],"approach":[108,139,153,179,207],"filling":[110,142],"gaps":[111],"scaffolds":[114],"with":[115,143],"aids":[116],"maps.":[119],"Using":[120,171],"simulated":[121],"data":[122,128],"from":[123,129],"12":[124],"species":[125],"real":[127],"3":[130],"species,":[131],"we":[132],"demonstrate":[133],"successful":[135],"application":[136],"our":[138,178,206],"in":[140],"gap":[141],"improved":[144],"accuracy":[145,182],"completeness":[147],"CONCLUSION:":[151],"Our":[152],"applies":[154],"sequential":[156],"Bayesian":[157],"updating":[158],"technique":[159],"measure":[161],"similarity":[163,173],"between":[164],"candidate":[168],"this":[172],"guide":[175],"path":[176],"searching,":[177],"achieves":[180],"higher":[181],"than":[183],"existing":[185],"evaluation\"":[188,200],"strategy":[189,201],"heuristics.":[193],"Furthermore,":[194],"unlike":[195],"enumerating":[202],"all":[203],"possible":[204],"paths,":[205],"prunes":[208],"unlikely":[210],"sub-paths":[211],"extends":[213],"highly-probable":[215],"ones":[216],"only,":[217],"significantly":[219],"increasing":[220],"efficiency.":[222]},"counts_by_year":[{"year":2024,"cited_by_count":2}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}