{"id":"https://openalex.org/W2096516039","doi":"https://doi.org/10.1109/fbit.2007.119","title":"ConPath: Scaffold Analysis Tool Using Mate-Pair Information for Genome Sequencing","display_name":"ConPath: Scaffold Analysis Tool Using Mate-Pair Information for Genome Sequencing","publication_year":2007,"publication_date":"2007-01-01","ids":{"openalex":"https://openalex.org/W2096516039","doi":"https://doi.org/10.1109/fbit.2007.119","mag":"2096516039"},"language":"en","primary_location":{"id":"doi:10.1109/fbit.2007.119","is_oa":false,"landing_page_url":"https://doi.org/10.1109/fbit.2007.119","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2007 Frontiers in the Convergence of Bioscience and Information Technologies","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085052963","display_name":"Pan-Gyu Kim","orcid":null},"institutions":[{"id":"https://openalex.org/I2801396971","display_name":"Ministry of SMEs and Startups","ror":"https://ror.org/022c4zk48","country_code":"KR","type":"government","lineage":["https://openalex.org/I2801339556","https://openalex.org/I2801339556","https://openalex.org/I2801396971","https://openalex.org/I4210089395"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Pan-Gyu Kim","raw_affiliation_strings":["SmallSoft Company Limited, Daejeon, South Korea"],"affiliations":[{"raw_affiliation_string":"SmallSoft Company Limited, Daejeon, South Korea","institution_ids":["https://openalex.org/I2801396971"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008167944","display_name":"Hwan-Gue Cho","orcid":null},"institutions":[{"id":"https://openalex.org/I4921948","display_name":"Pusan National University","ror":"https://ror.org/01an57a31","country_code":"KR","type":"education","lineage":["https://openalex.org/I4921948"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Hwan-Gue Cho","raw_affiliation_strings":["Department of Computer Science and Engineering, Pusan National University, Busan, South Korea"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Pusan National University, Busan, South Korea","institution_ids":["https://openalex.org/I4921948"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5086947867","display_name":"Kiejung Park","orcid":null},"institutions":[{"id":"https://openalex.org/I2801396971","display_name":"Ministry of SMEs and Startups","ror":"https://ror.org/022c4zk48","country_code":"KR","type":"government","lineage":["https://openalex.org/I2801339556","https://openalex.org/I2801339556","https://openalex.org/I2801396971","https://openalex.org/I4210089395"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Kiejung Park","raw_affiliation_strings":["SmallSoft Company Limited, Daejeon, South Korea"],"affiliations":[{"raw_affiliation_string":"SmallSoft Company Limited, Daejeon, South Korea","institution_ids":["https://openalex.org/I2801396971"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5085052963"],"corresponding_institution_ids":["https://openalex.org/I2801396971"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.11846443,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"269","issue":null,"first_page":"55","last_page":"59"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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":0.9998999834060669,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9947999715805054,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9922000169754028,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/contig","display_name":"Contig","score":0.9837157726287842},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6243472099304199},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5416352152824402},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.46698328852653503},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.34137898683547974},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26307862997055054},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24392199516296387},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.07624578475952148}],"concepts":[{"id":"https://openalex.org/C59582021","wikidata":"https://www.wikidata.org/wiki/Q1128751","display_name":"Contig","level":4,"score":0.9837157726287842},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6243472099304199},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5416352152824402},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.46698328852653503},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.34137898683547974},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26307862997055054},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24392199516296387},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.07624578475952148},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/fbit.2007.119","is_oa":false,"landing_page_url":"https://doi.org/10.1109/fbit.2007.119","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2007 Frontiers in the Convergence of Bioscience and Information Technologies","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":10,"referenced_works":["https://openalex.org/W1971403296","https://openalex.org/W1992983770","https://openalex.org/W2083215220","https://openalex.org/W2113679691","https://openalex.org/W2127230663","https://openalex.org/W2137667404","https://openalex.org/W2145186656","https://openalex.org/W2164075646","https://openalex.org/W2165460636","https://openalex.org/W2168909179"],"related_works":["https://openalex.org/W2089480001","https://openalex.org/W2885619582","https://openalex.org/W3167837387","https://openalex.org/W54719527","https://openalex.org/W4250462852","https://openalex.org/W2060480089","https://openalex.org/W2993223466","https://openalex.org/W4381279187","https://openalex.org/W2013063066","https://openalex.org/W3134563641"],"abstract_inverted_index":{"We":[0,80],"have":[1,81,99],"developed":[2],"a":[3,8],"Windows-based":[4],"program,":[5],"ConPath,":[6],"as":[7],"scaffold":[9,135],"analyzer":[10],"which":[11],"constructs":[12],"scaffolds":[13,144],"by":[14,21,74,103],"ordering":[15],"and":[16,36,69,77,95,124,146],"orienting":[17],"separate":[18],"sequence":[19],"contigs":[20,108],"exploiting":[22],"the":[23,42,61],"mate-pair":[24,51,140],"information":[25,35,73,138],"between":[26],"contig-pairs.":[27],"Our":[28],"algorithm":[29],"builds":[30],"directed":[31],"graphs":[32],"from":[33],"link":[34],"traverses":[37],"them":[38],"to":[39,126],"find":[40],"out":[41,105],"longest":[43],"acyclic":[44],"graphs.":[45],"Using":[46],"end-read":[47],"pairs":[48],"of":[49,57,64,112],"fixed-sized":[50],"library,":[52],"ConPath":[53,83],"determines":[54],"relative":[55],"orientations":[56,76],"all":[58],"contigs,":[59],"estimates":[60],"gap":[62,78],"size":[63],"each":[65,128],"adjacent":[66],"contig":[67,101,129,133],"pairs,":[68],"reports":[70],"wrong":[71],"assembly":[72,102],"validating":[75],"sizes.":[79],"utilized":[82],"in":[84,116,130],"more":[85],"than":[86],"10":[87],"microbial":[88],"genome":[89],"projects,":[90],"including":[91],"M.":[92],"succiniciproducens":[93],"[12]":[94],"V.vulinificus,":[96],"where":[97],"we":[98],"verified":[100],"finding":[104],"some":[106,121],"erroneous":[107],"with":[109],"four":[110],"kinds":[111],"error":[113],"types":[114],"defined":[115],"ConPath.":[117],"It":[118],"also":[119],"supports":[120],"convenient":[122],"features":[123],"viewers":[125],"investigate":[127],"detail,":[131],"like":[132],"viewer,":[134,136],"edge":[137],"list,":[139,141],"printing":[142],"complex":[143],"structures,":[145],"so":[147],"on.":[148]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}