{"id":"https://openalex.org/W1986262731","doi":"https://doi.org/10.1145/1774088.1774419","title":"FANGS","display_name":"FANGS","publication_year":2010,"publication_date":"2010-03-22","ids":{"openalex":"https://openalex.org/W1986262731","doi":"https://doi.org/10.1145/1774088.1774419","mag":"1986262731"},"language":"en","primary_location":{"id":"doi:10.1145/1774088.1774419","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1774088.1774419","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2010 ACM Symposium on Applied Computing","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/A5085992504","display_name":"Sanchit Misra","orcid":"https://orcid.org/0000-0001-7863-858X"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sanchit Misra","raw_affiliation_strings":["Northwestern University, Evanston, IL"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northwestern University, Evanston, IL","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030090531","display_name":"Ramanathan Narayanan","orcid":"https://orcid.org/0000-0003-4456-5241"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ramanathan Narayanan","raw_affiliation_strings":["Northwestern University, Evanston, IL"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northwestern University, Evanston, IL","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019720745","display_name":"Simon Lin","orcid":"https://orcid.org/0000-0002-3003-3394"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Simon Lin","raw_affiliation_strings":["Northwestern University, Chicago, IL"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northwestern University, Chicago, IL","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5074976770","display_name":"Alok Choudhary","orcid":"https://orcid.org/0000-0001-8152-6319"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alok Choudhary","raw_affiliation_strings":["Northwestern University, Evanston, IL"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northwestern University, Evanston, IL","institution_ids":["https://openalex.org/I111979921"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.6807,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.68292628,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"1539","last_page":"1546"},"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/T11269","display_name":"Algorithms and Data Compression","score":0.9994000196456909,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9937999844551086,"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/reference-genome","display_name":"Reference genome","score":0.7075787782669067},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.657010555267334},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6067931652069092},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5352312922477722},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5199229121208191},{"id":"https://openalex.org/keywords/human-genome","display_name":"Human genome","score":0.4738769233226776},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.41368094086647034},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.40244007110595703},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3114283084869385},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30649158358573914},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2505148947238922}],"concepts":[{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.7075787782669067},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.657010555267334},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6067931652069092},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5352312922477722},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5199229121208191},{"id":"https://openalex.org/C197077220","wikidata":"https://www.wikidata.org/wiki/Q720988","display_name":"Human genome","level":4,"score":0.4738769233226776},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.41368094086647034},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.40244007110595703},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3114283084869385},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30649158358573914},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2505148947238922}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/1774088.1774419","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1774088.1774419","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2010 ACM Symposium on Applied Computing","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3587077739","display_name":null,"funder_award_id":"DE-FC02-01ER25485","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G427323943","display_name":null,"funder_award_id":"CCF-0621443SDCI OCI-0724599CNS-0551639IIS-0536994","funder_id":"https://openalex.org/F4320337388","funder_display_name":"Division of Computer and Network Systems"},{"id":"https://openalex.org/G5236257539","display_name":null,"funder_award_id":"CCF-0621443SDCI OCI-0724599CNS-0551639IIS-0536994","funder_id":"https://openalex.org/F4320337377","funder_display_name":"Office of Advanced Cyberinfrastructure"},{"id":"https://openalex.org/G6322190886","display_name":null,"funder_award_id":"CCF-0621443SDCI OCI-0724599CNS-0551639IIS-0536994","funder_id":"https://openalex.org/F4320337389","funder_display_name":"Division of Information and Intelligent Systems"},{"id":"https://openalex.org/G6344002253","display_name":null,"funder_award_id":"CCF-0621443SDCI OCI-0724599CNS-0551639IIS-0536994","funder_id":"https://openalex.org/F4320337387","funder_display_name":"Division of Computing and Communication Foundations"},{"id":"https://openalex.org/G7265257261","display_name":null,"funder_award_id":"CCF-0621443SDCI OCI-0724599CNS-0551639IIS-0536994","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8670585632","display_name":null,"funder_award_id":"DE-FC02-07ER25808","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320337377","display_name":"Office of Advanced Cyberinfrastructure","ror":"https://ror.org/04nh1dc89"},{"id":"https://openalex.org/F4320337387","display_name":"Division of Computing and Communication Foundations","ror":"https://ror.org/01mng8331"},{"id":"https://openalex.org/F4320337388","display_name":"Division of Computer and Network Systems","ror":"https://ror.org/02rdzmk74"},{"id":"https://openalex.org/F4320337389","display_name":"Division of Information and Intelligent Systems","ror":"https://ror.org/053a2cp42"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":17,"referenced_works":["https://openalex.org/W1998048394","https://openalex.org/W2015292449","https://openalex.org/W2041606263","https://openalex.org/W2052890777","https://openalex.org/W2055043387","https://openalex.org/W2072193858","https://openalex.org/W2074231493","https://openalex.org/W2087064593","https://openalex.org/W2097862362","https://openalex.org/W2106678197","https://openalex.org/W2112113834","https://openalex.org/W2113649367","https://openalex.org/W2124985265","https://openalex.org/W2136145671","https://openalex.org/W2139760555","https://openalex.org/W2142619120","https://openalex.org/W2230252988"],"related_works":["https://openalex.org/W2921363728","https://openalex.org/W2279684808","https://openalex.org/W1969895229","https://openalex.org/W3217304749","https://openalex.org/W2066142713","https://openalex.org/W2894932706","https://openalex.org/W2108497208","https://openalex.org/W2767606877","https://openalex.org/W2133994800","https://openalex.org/W2289136766"],"abstract_inverted_index":{"Next":[0,48],"Generation":[1,49],"Sequencing":[2],"machines":[3],"are":[4],"generating":[5],"millions":[6],"of":[7,39,86,98,111,141,150],"short":[8],"DNA":[9],"sequences":[10,23],"(reads)":[11],"everyday.":[12],"There":[13],"is":[14,76,137],"a":[15,44,72,77,87,95,109,126],"need":[16],"for":[17,47,148],"efficient":[18],"algorithms":[19],"to":[20,24,28,35,66,81,115],"map":[21,68],"these":[22],"the":[25,37,55,84,91,116,145],"reference":[26,73,92],"genome":[27,93,118],"identify":[29],"SNPs":[30],"or":[31,100,156],"rare":[32],"transcripts":[33],"and":[34,62],"fulfill":[36],"dream":[38],"personalized":[40],"medicine.":[41],"We":[42],"present":[43],"Fast":[45],"Algorithm":[46],"Sequencers":[50],"(FANGS),":[51],"which":[52],"dynamically":[53],"reduces":[54],"search":[56],"space":[57],"by":[58],"using":[59],"q-gram":[60],"filtering":[61],"pigeon":[63],"hole":[64],"principle":[65],"rapidly":[67],"454-Roche":[69],"reads":[70,107],"onto":[71],"genome.":[74],"FANGS":[75,136],"sequential":[78],"algorithm":[79],"designed":[80],"find":[82],"all":[83],"matches":[85],"query":[88],"sequence":[89],"in":[90,119],"tolerating":[94],"large":[96],"number":[97],"mismatches":[99,155],"insertions/deletions.":[101],"Using":[102],"FANGS,":[103],"we":[104,133],"mapped":[105],"50000":[106],"with":[108],"total":[110],"25":[112],"million":[113],"nucleotides":[114],"human":[117],"as":[120,122],"little":[121],"23.3":[123],"minutes":[124],"on":[125],"typical":[127],"desktop":[128],"computer.":[129],"Through":[130],"our":[131],"experiments,":[132],"found":[134],"that":[135],"upto":[138],"an":[139],"order":[140],"magnitude":[142],"faster":[143],"than":[144],"state-of-the-art":[146],"techniques":[147],"queries":[149],"length":[151],"500":[152],"allowing":[153],"5":[154],"insertion/deletions.":[157]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2016-06-24T00:00:00"}
