{"id":"https://openalex.org/W2011031726","doi":"https://doi.org/10.4304/jsw.9.8.2160-2168","title":"De Bruijn Graph based De novo Genome Assembly","display_name":"De Bruijn Graph based De novo Genome Assembly","publication_year":2014,"publication_date":"2014-07-28","ids":{"openalex":"https://openalex.org/W2011031726","doi":"https://doi.org/10.4304/jsw.9.8.2160-2168","mag":"2011031726"},"language":"en","primary_location":{"id":"doi:10.4304/jsw.9.8.2160-2168","is_oa":false,"landing_page_url":"https://doi.org/10.4304/jsw.9.8.2160-2168","pdf_url":null,"source":{"id":"https://openalex.org/S114141714","display_name":"Journal of Software","issn_l":"1796-217X","issn":["1796-217X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318660","host_organization_name":"Academy Publisher","host_organization_lineage":["https://openalex.org/P4310318660"],"host_organization_lineage_names":["Academy Publisher"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Software","raw_type":"journal-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/A5064264181","display_name":"Mohammad Ibrahim Khan","orcid":"https://orcid.org/0000-0002-4228-6727"},"institutions":[{"id":"https://openalex.org/I102782458","display_name":"Chittagong University of Engineering & Technology","ror":"https://ror.org/052qsay17","country_code":"BD","type":"education","lineage":["https://openalex.org/I102782458"]}],"countries":["BD"],"is_corresponding":true,"raw_author_name":"Mohammad Ibrahim Khan","raw_affiliation_strings":["Computer Science and Engineering, Chittagong University of Engineering and Technology, Chittagong"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering, Chittagong University of Engineering and Technology, Chittagong","institution_ids":["https://openalex.org/I102782458"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5062177671","display_name":"Md. Sarwar Kamal","orcid":"https://orcid.org/0000-0002-1945-821X"},"institutions":[{"id":"https://openalex.org/I102782458","display_name":"Chittagong University of Engineering & Technology","ror":"https://ror.org/052qsay17","country_code":"BD","type":"education","lineage":["https://openalex.org/I102782458"]}],"countries":["BD"],"is_corresponding":false,"raw_author_name":"Md Sarwar Kamal","raw_affiliation_strings":["Computer Science and Engineering, Chittagong University of Engineering and Technology, Chittagong"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering, Chittagong University of Engineering and Technology, Chittagong","institution_ids":["https://openalex.org/I102782458"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5064264181"],"corresponding_institution_ids":["https://openalex.org/I102782458"],"apc_list":null,"apc_paid":null,"fwci":0.1434604,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.52823075,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"9","issue":"8","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9984999895095825,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9915000200271606,"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/computer-science","display_name":"Computer science","score":0.8801453113555908},{"id":"https://openalex.org/keywords/de-bruijn-graph","display_name":"De Bruijn graph","score":0.8383246660232544},{"id":"https://openalex.org/keywords/de-bruijn-sequence","display_name":"De Bruijn sequence","score":0.6752701997756958},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.5535281300544739},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.46039196848869324},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.25182539224624634},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.10514861345291138},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10305577516555786},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.0885227620601654},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07515835762023926},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.044669151306152344}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8801453113555908},{"id":"https://openalex.org/C20218877","wikidata":"https://www.wikidata.org/wiki/Q3066095","display_name":"De Bruijn graph","level":3,"score":0.8383246660232544},{"id":"https://openalex.org/C170320093","wikidata":"https://www.wikidata.org/wiki/Q1953457","display_name":"De Bruijn sequence","level":2,"score":0.6752701997756958},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.5535281300544739},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.46039196848869324},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.25182539224624634},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.10514861345291138},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10305577516555786},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0885227620601654},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07515835762023926},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.044669151306152344},{"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}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.4304/jsw.9.8.2160-2168","is_oa":false,"landing_page_url":"https://doi.org/10.4304/jsw.9.8.2160-2168","pdf_url":null,"source":{"id":"https://openalex.org/S114141714","display_name":"Journal of Software","issn_l":"1796-217X","issn":["1796-217X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318660","host_organization_name":"Academy Publisher","host_organization_lineage":["https://openalex.org/P4310318660"],"host_organization_lineage_names":["Academy Publisher"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Software","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W1577982243","https://openalex.org/W1598134722","https://openalex.org/W1841715584","https://openalex.org/W1964992325","https://openalex.org/W1966822396","https://openalex.org/W1971899779","https://openalex.org/W1981509058","https://openalex.org/W1982827785","https://openalex.org/W1988741630","https://openalex.org/W2001798854","https://openalex.org/W2009119978","https://openalex.org/W2033409266","https://openalex.org/W2076151007","https://openalex.org/W2091866157","https://openalex.org/W2105067980","https://openalex.org/W2108418216","https://openalex.org/W2124715997","https://openalex.org/W2126419817","https://openalex.org/W2129933858","https://openalex.org/W2133312150","https://openalex.org/W2141458291","https://openalex.org/W2141920662","https://openalex.org/W2142749416","https://openalex.org/W2156841387","https://openalex.org/W2158139747","https://openalex.org/W2159946869","https://openalex.org/W2160969485","https://openalex.org/W2161546116","https://openalex.org/W2166558929","https://openalex.org/W2167719367","https://openalex.org/W2169002484","https://openalex.org/W2941307081"],"related_works":["https://openalex.org/W2562683361","https://openalex.org/W3087469195","https://openalex.org/W3125399386","https://openalex.org/W2354744388","https://openalex.org/W2949121831","https://openalex.org/W3215786367","https://openalex.org/W2991626973","https://openalex.org/W4387083702","https://openalex.org/W4318940746","https://openalex.org/W2133531097"],"abstract_inverted_index":{"The":[0],"Next":[1,112],"Generation":[2,113],"Sequencing":[3,114],"(NGS)":[4],"is":[5,52],"an":[6,53],"important":[7,54],"process":[8],"which":[9],"assures":[10],"inexpensive":[11],"organization":[12],"of":[13,16,30,67,76],"vast":[14],"size":[15],"raw":[17],"sequence":[18],"data":[19],"set":[20],"over":[21],"any":[22],"traditional":[23],"sequencing":[24,35,45],"systems":[25],"or":[26],"methods.":[27],"Various":[28],"aspects":[29],"NGS":[31],"like":[32,97],"template":[33],"preparation,":[34],"imaging":[36],"and":[37,40,46,94,106],"genome":[38,44,78],"alignment":[39,47],"assembly":[41],"outlines":[42],"the":[43,61,74,77],".Consequently,":[48],"deBruijn":[49,116],"Graph":[50,117],"(dBG)":[51],"mathematical":[55],"tool":[56],"that":[57],"graphically":[58],"analyzes":[59],"how":[60],"orientations":[62],"are":[63],"constructed":[64],"in":[65,80],"groups":[66],"nucleotides.":[68],"Basically,":[69],"de":[70,87,91],"Bruijn":[71,88],"graph":[72,89],"describe":[73],"formation":[75],"segments":[79],"a":[81],"circular":[82],"iterative":[83],"fashions.":[84],"Some":[85],"pivotal":[86],"based":[90],"novo":[92],"algorithms":[93],"software":[95],"package":[96],"T-IDBA,":[98],"Oases,":[99],"IDBA-tran,":[100],"Euler,":[101],"Velvet,":[102],"ABySS,":[103],"AllPaths,":[104],"SOAPdenovo":[105],"SOAPdenovo2":[107],"have":[108],"illustrated":[109],"here.":[110],"(NGS),":[115],"(dBG),":[118],"SOAPdenove2":[119]},"counts_by_year":[{"year":2016,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}