{"id":"https://openalex.org/W2563061743","doi":"https://doi.org/10.1145/3014812.3014816","title":"TRA","display_name":"TRA","publication_year":2016,"publication_date":"2016-12-20","ids":{"openalex":"https://openalex.org/W2563061743","doi":"https://doi.org/10.1145/3014812.3014816","mag":"2563061743"},"language":"en","primary_location":{"id":"doi:10.1145/3014812.3014816","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3014812.3014816","pdf_url":null,"source":{"id":"https://openalex.org/S4306524001","display_name":"Proceedings of the Australasian Computer Science Week Multiconference","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Australasian Computer Science Week Multiconference","raw_type":"proceedings-article"},"type":"conference-paper","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/A5024595700","display_name":"Yongqing Jiang","orcid":"https://orcid.org/0000-0002-4319-447X"},"institutions":[{"id":"https://openalex.org/I149704539","display_name":"Deakin University","ror":"https://ror.org/02czsnj07","country_code":"AU","type":"education","lineage":["https://openalex.org/I149704539"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Yongqing Jiang","raw_affiliation_strings":["Deakin University, Burwood Highway, Burwood, VIC, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Deakin University, Burwood Highway, Burwood, VIC, Australia","institution_ids":["https://openalex.org/I149704539"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044142602","display_name":"Jinhua Lu","orcid":"https://orcid.org/0000-0002-3699-9894"},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Jinhua Lu","raw_affiliation_strings":["National University of Singapore, Singapore, Republic of Singapore"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National University of Singapore, Singapore, Republic of Singapore","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062082949","display_name":"Jingyu Hou","orcid":"https://orcid.org/0000-0002-6403-9786"},"institutions":[{"id":"https://openalex.org/I149704539","display_name":"Deakin University","ror":"https://ror.org/02czsnj07","country_code":"AU","type":"education","lineage":["https://openalex.org/I149704539"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Jingyu Hou","raw_affiliation_strings":["Deakin University, Burwood Highway, Burwood, VIC , Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Deakin University, Burwood Highway, Burwood, VIC , Australia","institution_ids":["https://openalex.org/I149704539"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5051406984","display_name":"Wanlei Zhou","orcid":"https://orcid.org/0000-0002-1680-2521"},"institutions":[{"id":"https://openalex.org/I149704539","display_name":"Deakin University","ror":"https://ror.org/02czsnj07","country_code":"AU","type":"education","lineage":["https://openalex.org/I149704539"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Wanlei Zhou","raw_affiliation_strings":["Deakin University, Burwood Highway, Burwood, VIC, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Deakin University, Burwood Highway, Burwood, VIC, Australia","institution_ids":["https://openalex.org/I149704539"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9997000098228455,"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":0.9965999722480774,"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":0.9152050018310547},{"id":"https://openalex.org/keywords/tandem-repeat","display_name":"Tandem repeat","score":0.8402184247970581},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6294043064117432},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6227985620498657},{"id":"https://openalex.org/keywords/human-genome","display_name":"Human genome","score":0.5547208786010742},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5169926881790161},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.4956880807876587},{"id":"https://openalex.org/keywords/intergenic-region","display_name":"Intergenic region","score":0.4800218641757965},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.4763510525226593},{"id":"https://openalex.org/keywords/chromosome","display_name":"Chromosome","score":0.45447689294815063},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.45008957386016846},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3485736846923828},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.16501542925834656},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15427282452583313}],"concepts":[{"id":"https://openalex.org/C59582021","wikidata":"https://www.wikidata.org/wiki/Q1128751","display_name":"Contig","level":4,"score":0.9152050018310547},{"id":"https://openalex.org/C27149982","wikidata":"https://www.wikidata.org/wiki/Q3456514","display_name":"Tandem repeat","level":4,"score":0.8402184247970581},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6294043064117432},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6227985620498657},{"id":"https://openalex.org/C197077220","wikidata":"https://www.wikidata.org/wiki/Q720988","display_name":"Human genome","level":4,"score":0.5547208786010742},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5169926881790161},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.4956880807876587},{"id":"https://openalex.org/C195139083","wikidata":"https://www.wikidata.org/wiki/Q3463539","display_name":"Intergenic region","level":4,"score":0.4800218641757965},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.4763510525226593},{"id":"https://openalex.org/C30481170","wikidata":"https://www.wikidata.org/wiki/Q37748","display_name":"Chromosome","level":3,"score":0.45447689294815063},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.45008957386016846},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3485736846923828},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.16501542925834656},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15427282452583313},{"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/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3014812.3014816","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3014812.3014816","pdf_url":null,"source":{"id":"https://openalex.org/S4306524001","display_name":"Proceedings of the Australasian Computer Science Week Multiconference","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Australasian Computer Science Week Multiconference","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":39,"referenced_works":["https://openalex.org/W1966822396","https://openalex.org/W1970814720","https://openalex.org/W1972924519","https://openalex.org/W1996942642","https://openalex.org/W1999746344","https://openalex.org/W2003398699","https://openalex.org/W2022986961","https://openalex.org/W2025202959","https://openalex.org/W2029609095","https://openalex.org/W2041374960","https://openalex.org/W2046137036","https://openalex.org/W2048540261","https://openalex.org/W2085154635","https://openalex.org/W2096634299","https://openalex.org/W2097529842","https://openalex.org/W2105349784","https://openalex.org/W2111584908","https://openalex.org/W2113333419","https://openalex.org/W2118526609","https://openalex.org/W2121642311","https://openalex.org/W2127768708","https://openalex.org/W2129497695","https://openalex.org/W2129933858","https://openalex.org/W2135361281","https://openalex.org/W2139353300","https://openalex.org/W2140059069","https://openalex.org/W2143357905","https://openalex.org/W2149459456","https://openalex.org/W2154546296","https://openalex.org/W2154650389","https://openalex.org/W2157624015","https://openalex.org/W2159075303","https://openalex.org/W2160969485","https://openalex.org/W2161546116","https://openalex.org/W2161624819","https://openalex.org/W2166682117","https://openalex.org/W2168909179","https://openalex.org/W2600639051","https://openalex.org/W6661010131"],"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/W2944010518","https://openalex.org/W2105191441","https://openalex.org/W2763602215"],"abstract_inverted_index":{"Eukaryotic":[0],"genomes":[1],"contain":[2],"high":[3],"volumes":[4],"of":[5,24,57,84,96,115],"intronic":[6],"and":[7,33],"intergenic":[8],"regions":[9,99],"in":[10,21,37],"which":[11],"repetitive":[12,17,58,98],"sequences":[13,18,27,59],"are":[14,34],"abundant.":[15],"These":[16],"represent":[19],"challenges":[20],"genomic":[22,41],"assignment":[23],"short":[25],"read":[26],"generated":[28],"through":[29],"next":[30],"generation":[31],"sequencing":[32],"often":[35],"excluded":[36],"analysis":[38],"losing":[39],"invaluable":[40],"information.":[42],"Here":[43],"we":[44],"present":[45],"a":[46],"method,":[47],"known":[48],"as":[49],"TRA":[50],"(Tandem":[51],"Repeat":[52],"Assembler),":[53],"for":[54,73],"the":[55,85,88],"assembly":[56],"by":[60,111],"constructing":[61],"contigs":[62,86,116],"directly":[63],"from":[64],"paired-end":[65],"reads.":[66],"Using":[67],"an":[68],"experimentally":[69],"acquired":[70],"data":[71],"set":[72],"human":[74,89],"chromosome":[75],"14,":[76],"tandem":[77,97,104],"repeats":[78],">200":[79],"bp":[80],"were":[81,100],"assembled.":[82],"Alignment":[83],"to":[87,118],"genome":[90],"reference":[91],"(GRCh38)":[92],"revealed":[93],"that":[94],"84.3%":[95],"correctly":[101],"covered.":[102],"For":[103],"repeats,":[105],"this":[106],"method":[107],"outperformed":[108],"state-of-the-art":[109],"assemblers":[110],"generating":[112],"correct":[113],"N50":[114],"up":[117],"512":[119],"bp.":[120]},"counts_by_year":[],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2017-01-06T00:00:00"}
