{"id":"https://openalex.org/W4312924813","doi":"https://doi.org/10.1109/isvlsi54635.2022.00062","title":"GenStore: In-Storage Filtering of Genomic Data for High-Performance and Energy-Efficient Genome Analysis","display_name":"GenStore: In-Storage Filtering of Genomic Data for High-Performance and Energy-Efficient Genome Analysis","publication_year":2022,"publication_date":"2022-07-01","ids":{"openalex":"https://openalex.org/W4312924813","doi":"https://doi.org/10.1109/isvlsi54635.2022.00062"},"language":"en","primary_location":{"is_oa":false,"landing_page_url":"https://doi.org/10.1109/isvlsi54635.2022.00062","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},"type":"article","type_crossref":"proceedings-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/A5048764555","display_name":"Nika Mansouri Ghiasi","orcid":"https://orcid.org/0000-0002-0833-0042"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Nika Mansouri Ghiasi","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010929521","display_name":"Jisung Park","orcid":"https://orcid.org/0000-0002-1826-9003"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jisung Park","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033347097","display_name":"Harun Mustafa","orcid":"https://orcid.org/0000-0002-2125-6086"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Harun Mustafa","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002255450","display_name":"Jeremie Kim","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jeremie Kim","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056716458","display_name":"Ataberk Olgun","orcid":"https://orcid.org/0000-0001-5333-5726"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ataberk Olgun","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052807455","display_name":"Arvid Gollwitzer","orcid":"https://orcid.org/0009-0001-2170-8089"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Arvid Gollwitzer","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026337594","display_name":"Damla Senol Cali","orcid":"https://orcid.org/0000-0002-3665-6285"},"institutions":[{"id":"https://openalex.org/I4210099505","display_name":"BioNano Genomics (United States)","ror":"https://ror.org/014pv7733","country_code":"US","type":"company","lineage":["https://openalex.org/I4210099505"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Damla Senol Cali","raw_affiliation_strings":["Bionano Genomics"],"affiliations":[{"raw_affiliation_string":"Bionano Genomics","institution_ids":["https://openalex.org/I4210099505"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066286509","display_name":"Can F\u0131rt\u0131na","orcid":"https://orcid.org/0000-0002-6548-7863"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Can Firtina","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008354867","display_name":"Haiyu Mao","orcid":"https://orcid.org/0000-0002-7393-4504"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Haiyu Mao","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011927657","display_name":"Nour Almadhoun Alserr","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Nour Almadhoun Alserr","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028280505","display_name":"Rachata Ausavarungnirun","orcid":"https://orcid.org/0000-0002-1459-0852"},"institutions":[{"id":"https://openalex.org/I82828225","display_name":"King Mongkut's University of Technology North Bangkok","ror":"https://ror.org/04fy6jb97","country_code":"TH","type":"education","lineage":["https://openalex.org/I82828225"]}],"countries":["TH"],"is_corresponding":false,"raw_author_name":"Rachata Ausavarungnirun","raw_affiliation_strings":["KMUTNB"],"affiliations":[{"raw_affiliation_string":"KMUTNB","institution_ids":["https://openalex.org/I82828225"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080873211","display_name":"Nandita Vijaykumar","orcid":"https://orcid.org/0000-0003-3315-9336"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Nandita Vijaykumar","raw_affiliation_strings":["University of Toronto"],"affiliations":[{"raw_affiliation_string":"University of Toronto","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081055664","display_name":"Mohammed Alser","orcid":"https://orcid.org/0000-0002-6117-3701"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Mohammed Alser","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050695684","display_name":"Onur Mutlu","orcid":"https://orcid.org/0000-0002-0075-2312"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Onur Mutlu","raw_affiliation_strings":["ETH Zürich"],"affiliations":[{"raw_affiliation_string":"ETH Zürich","institution_ids":[]}]}],"institution_assertions":[],"countries_distinct_count":3,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.257,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.573058,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":70,"max":76},"biblio":{"volume":null,"issue":null,"first_page":"283","last_page":"287"},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9993,"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":0.9993,"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":0.983,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9711,"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/hybrid-genome-assembly","display_name":"Hybrid genome assembly","score":0.6537467},{"id":"https://openalex.org/keywords/illumina-dye-sequencing","display_name":"Illumina dye sequencing","score":0.47310996}],"concepts":[{"id":"https://openalex.org/C113425843","wikidata":"https://www.wikidata.org/wiki/Q5953213","display_name":"Hybrid genome assembly","level":5,"score":0.6537467},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.6520982},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.63362145},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48007947},{"id":"https://openalex.org/C126513998","wikidata":"https://www.wikidata.org/wiki/Q8973627","display_name":"Nanopore sequencing","level":4,"score":0.47682992},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.47666553},{"id":"https://openalex.org/C106337198","wikidata":"https://www.wikidata.org/wiki/Q13564012","display_name":"Illumina dye sequencing","level":4,"score":0.47310996},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.47307214},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.43794817},{"id":"https://openalex.org/C70712619","wikidata":"https://www.wikidata.org/wiki/Q908889","display_name":"DNA sequencer","level":4,"score":0.4229445},{"id":"https://openalex.org/C197077220","wikidata":"https://www.wikidata.org/wiki/Q720988","display_name":"Human genome","level":4,"score":0.41276178},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.35793784},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.34215218},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.32484835},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.18756014}],"mesh":[],"locations_count":1,"locations":[{"is_oa":false,"landing_page_url":"https://doi.org/10.1109/isvlsi54635.2022.00062","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.77,"display_name":"Affordable and clean energy","id":"https://metadata.un.org/sdg/7"}],"grants":[],"datasets":[],"versions":[],"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W3210632422","https://openalex.org/W3162953067","https://openalex.org/W3108447880","https://openalex.org/W3046066345","https://openalex.org/W2984906837","https://openalex.org/W2973347226","https://openalex.org/W2528722669","https://openalex.org/W2061338306","https://openalex.org/W2016974511","https://openalex.org/W1725128978"],"abstract_inverted_index":{"Genome":[0],"sequence":[1],"analysis,":[2],"which":[3],"analyzes":[4],"the":[5,46,52,56,84,105,113,120],"DNA":[6,31,49,90,166],"sequences":[7,47],"of":[8,28,48,58,61,104,116,135,138,206],"organisms,":[9],"is":[10,32,123],"important":[11],"for":[12],"many":[13],"applications":[14],"in":[15,55,92,119,127],"personalized":[16],"medicine":[17],"[1]\u2013[8],":[18],"outbreak":[19],"tracing":[20],"[9]\u2013[14],":[21],"and":[22,77,183],"evolutionary":[23],"studies":[24],"[15]\u2013[21].":[25],"The":[26,110],"information":[27,111],"an":[29],"organism's":[30,53],"converted":[33],"to":[34,86,162,204],"digital":[35],"data":[36],"via":[37],"a":[38,88,163],"process":[39],"called":[40,108],"sequencing.":[41],"A":[42],"sequencing":[43,81,97,126,131,143,175],"machine":[44],"extracts":[45],"molecules":[50],"from":[51,202],"sample":[54],"form":[57],"strings":[59],"consisting":[60],"four":[62],"base":[63,167,207],"pairs":[64,168,208],"$(bps)$":[67],",":[68,76],"denoted":[69],"by":[70],"xmlns:xlink=\"http://www.w3.org/1999/xlink\">$\\mathrm{A},":[73],"\\mathrm{C},":[74],"\\mathrm{G}$":[75],"T.":[78],"No":[79],"current":[80],"technology":[82],"has":[83],"capability":[85],"read":[87,118,142,174],"human":[89],"molecule":[91],"its":[93],"entirety.":[94],"Instead,":[95],"state-of-the-art":[96],"machines":[98,132],"generate":[99],"randomly":[100],"sampled,":[101],"inexact":[102],"sub-strings":[103],"original":[106],"genome,":[107],"reads.":[109,139],"about":[112],"corresponding":[114],"location":[115],"each":[117],"complete":[121],"genome":[122],"lost":[124],"during":[125],"most":[128],"technologies.":[129],"State-of-the-art":[130],"produce":[133,150,189],"one":[134],"two":[136],"kinds":[137],"1)":[140],"Short":[141],"technologies,":[144,176],"such":[145,177],"as":[146,178],"Illumina":[147],"[22],":[148],"[23],":[149],"reads":[151,190],"that":[152,191],"are":[153,192],"highly":[154],"accurate":[155,194],"(99-99.9%)":[156],"[24]\u2013[26],":[157],"but":[158,197],"short":[159],"(e.g.,":[160,199],"up":[161],"few":[164],"hundred":[165],"[24],":[169],"[27],":[170],"[28]).":[171],"2)":[172],"Long":[173],"Pacific":[179],"Biosciences":[180],"(PacBio)":[181],"[29]":[182],"Oxford":[184],"Nanopore":[185],"Technologies":[186],"(ONT)":[187],"[30],":[188],"less":[193],"(85-90%)":[195],"[27,31\u201333],":[196],"long":[198],"lengths":[200],"ranging":[201],"thousands":[203],"millions":[205],"[34]).":[209]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W4312924813","counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1}],"updated_date":"2025-01-03T04:58:50.131485","created_date":"2023-01-05"}