{"id":"https://openalex.org/W2121218297","doi":"https://doi.org/10.1145/2484762.2484832","title":"Enabling large-scale next-generation sequence assembly with Blacklight","display_name":"Enabling large-scale next-generation sequence assembly with Blacklight","publication_year":2013,"publication_date":"2013-07-22","ids":{"openalex":"https://openalex.org/W2121218297","doi":"https://doi.org/10.1145/2484762.2484832","mag":"2121218297"},"language":"en","primary_location":{"id":"doi:10.1145/2484762.2484832","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2484762.2484832","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Conference on Extreme Science and Engineering Discovery Environment: Gateway to Discovery","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/A5012424209","display_name":"Matthew Brian Couger","orcid":"https://orcid.org/0000-0003-3692-1613"},"institutions":[{"id":"https://openalex.org/I115475287","display_name":"Oklahoma State University","ror":"https://ror.org/01g9vbr38","country_code":"US","type":"education","lineage":["https://openalex.org/I115475287"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"M. Brian Couger","raw_affiliation_strings":["Oklahoma State University, Stillwater, OK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Oklahoma State University, Stillwater, OK","institution_ids":["https://openalex.org/I115475287"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067569888","display_name":"Lenore Pipes","orcid":"https://orcid.org/0000-0003-0056-8045"},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lenore Pipes","raw_affiliation_strings":["Cornell University, Ithaca, NY","Cornell University (Ithaca, NY);"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cornell University, Ithaca, NY","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Cornell University (Ithaca, NY);","institution_ids":["https://openalex.org/I205783295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037662959","display_name":"Philip D. Blood","orcid":"https://orcid.org/0000-0002-9129-1223"},"institutions":[{"id":"https://openalex.org/I35765314","display_name":"Pittsburgh Supercomputing Center","ror":"https://ror.org/04tac1482","country_code":"US","type":"facility","lineage":["https://openalex.org/I35765314"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Philip D. Blood","raw_affiliation_strings":["Pittsburgh Supercomputing Center, Pittsburgh, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pittsburgh Supercomputing Center, Pittsburgh, PA","institution_ids":["https://openalex.org/I35765314"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085435765","display_name":"Christopher E. Mason","orcid":"https://orcid.org/0000-0002-1850-1642"},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher E. Mason","raw_affiliation_strings":["Weill Cornell Medical College","Weill-Cornell Medical College"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Weill Cornell Medical College","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Weill-Cornell Medical College","institution_ids":["https://openalex.org/I205783295"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.1496,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.57940499,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"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":0.9998999834060669,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9972000122070312,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9966999888420105,"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/metagenomics","display_name":"Metagenomics","score":0.7135119438171387},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.694747805595398},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.6118952631950378},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5990529656410217},{"id":"https://openalex.org/keywords/variety","display_name":"Variety (cybernetics)","score":0.4681060016155243},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.45887887477874756},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4397534728050232},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4209877848625183},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2852358818054199},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.126115083694458},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09986528754234314},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.07482555508613586}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.7135119438171387},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.694747805595398},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.6118952631950378},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5990529656410217},{"id":"https://openalex.org/C136197465","wikidata":"https://www.wikidata.org/wiki/Q1729295","display_name":"Variety (cybernetics)","level":2,"score":0.4681060016155243},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45887887477874756},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4397534728050232},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4209877848625183},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2852358818054199},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.126115083694458},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09986528754234314},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.07482555508613586},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2484762.2484832","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2484762.2484832","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Conference on Extreme Science and Engineering Discovery Environment: Gateway to Discovery","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":20,"referenced_works":["https://openalex.org/W1635391495","https://openalex.org/W1968659469","https://openalex.org/W1969346416","https://openalex.org/W1989348205","https://openalex.org/W1995618926","https://openalex.org/W2011586157","https://openalex.org/W2017096350","https://openalex.org/W2048500566","https://openalex.org/W2048673910","https://openalex.org/W2049334770","https://openalex.org/W2065783627","https://openalex.org/W2079971866","https://openalex.org/W2087377443","https://openalex.org/W2103539617","https://openalex.org/W2108929776","https://openalex.org/W2126419817","https://openalex.org/W2151831732","https://openalex.org/W2156649314","https://openalex.org/W2159265519","https://openalex.org/W2160969485"],"related_works":["https://openalex.org/W638577851","https://openalex.org/W2968354375","https://openalex.org/W2359440920","https://openalex.org/W2889550857","https://openalex.org/W3013372948","https://openalex.org/W3135997498","https://openalex.org/W4242417330","https://openalex.org/W4388282505","https://openalex.org/W3198631238","https://openalex.org/W4255657129"],"abstract_inverted_index":{"A":[0,81],"variety":[1],"of":[2,27,74,96,113,120,126,134,143],"extremely":[3],"challenging":[4,154],"biological":[5],"sequence":[6,33,39,68,79,138],"analyses":[7,53],"were":[8],"conducted":[9],"on":[10,89],"the":[11,90,114,118,127,141,152],"XSEDE":[12,129,148],"large":[13,37,62],"shared":[14],"memory":[15],"resource":[16,92,130],"Blacklight,":[17],"using":[18],"current":[19],"bioinformatics":[20],"tools":[21],"and":[22,44,64,70,77,111,123,136,140],"encompassing":[23],"a":[24],"wide":[25],"range":[26],"scientific":[28,107,132,155],"applications.":[29],"These":[30,99],"include":[31],"genomic":[32,135],"assembly":[34,42],"[6,12],":[35],"very":[36,61],"metagenomic":[38],"assembly,":[40],"transcriptome":[41],"[3],":[43],"sequencing":[45],"error":[46],"correction.":[47],"The":[48,109],"datasets":[49],"used":[50],"in":[51,150],"these":[52,97,144],"included":[54],"uncategorized":[55],"fungal":[56],"species,":[57],"reference":[58],"microbial":[59],"data,":[60,69,139],"soil":[63],"human":[65],"gut":[66],"microbiome":[67],"primate":[71],"transcriptomes,":[72],"comprised":[73],"both":[75],"short-":[76],"long-read":[78],"data.":[80],"new":[82],"parallel":[83],"command":[84],"execution":[85],"program":[86],"was":[87],"developed":[88],"Blacklight":[91,128],"to":[93],"handle":[94],"some":[95],"analyses.":[98],"results":[100,115],"represent":[101],"significant":[102],"advances":[103],"for":[104,131],"their":[105],"respective":[106],"communities.":[108],"breadth":[110],"depth":[112],"achieved":[116],"demonstrate":[117],"ease":[119],"use,":[121],"versatility,":[122],"unique":[124],"capabilities":[125],"analysis":[133],"transcriptomic":[137],"power":[142],"resources,":[145],"together":[146],"with":[147],"support,":[149],"meeting":[151],"most":[153],"problems.":[156]},"counts_by_year":[{"year":2014,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
