{"id":"https://openalex.org/W4313304833","doi":"https://doi.org/10.1145/3613424.3614308","title":"Efficiently Enabling Block Semantics and Data Updates in DNA Storage","display_name":"Efficiently Enabling Block Semantics and Data Updates in DNA Storage","publication_year":2023,"publication_date":"2023-10-28","ids":{"openalex":"https://openalex.org/W4313304833","doi":"https://doi.org/10.1145/3613424.3614308"},"language":"en","primary_location":{"id":"doi:10.1145/3613424.3614308","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3613424.3614308","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3613424.3614308","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"56th Annual IEEE/ACM International Symposium on Microarchitecture","raw_type":"proceedings-article"},"type":"preprint","indexed_in":["arxiv","crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://dl.acm.org/doi/pdf/10.1145/3613424.3614308","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053518180","display_name":"Puru Sharma","orcid":"https://orcid.org/0009-0000-5854-1086"},"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":true,"raw_author_name":"Puru Sharma","raw_affiliation_strings":["National University of Singapore, Singapore"],"raw_orcid":"https://orcid.org/0009-0000-5854-1086","affiliations":[{"raw_affiliation_string":"National University of Singapore, Singapore","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054889655","display_name":"Cheng Kai Lim","orcid":"https://orcid.org/0000-0003-4640-9883"},"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":"Cheng-Kai Lim","raw_affiliation_strings":["National University of Singapore, Singapore"],"raw_orcid":"https://orcid.org/0000-0003-4640-9883","affiliations":[{"raw_affiliation_string":"National University of Singapore, Singapore","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058368780","display_name":"Dehui Lin","orcid":"https://orcid.org/0009-0005-3437-2683"},"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":"Dehui Lin","raw_affiliation_strings":["National University of Singapore, Singapore"],"raw_orcid":"https://orcid.org/0009-0005-3437-2683","affiliations":[{"raw_affiliation_string":"National University of Singapore, Singapore","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072440414","display_name":"Yash Pote","orcid":"https://orcid.org/0000-0002-5060-684X"},"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":"Yash Pote","raw_affiliation_strings":["National University of Singapore, Singapore"],"raw_orcid":"https://orcid.org/0000-0002-5060-684X","affiliations":[{"raw_affiliation_string":"National University of Singapore, Singapore","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025453962","display_name":"Djordje Jevdjic","orcid":"https://orcid.org/0000-0002-3341-9364"},"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":"Djordje Jevdjic","raw_affiliation_strings":["National University of Singapore, Singapore"],"raw_orcid":"https://orcid.org/0000-0002-3341-9364","affiliations":[{"raw_affiliation_string":"National University of Singapore, Singapore","institution_ids":["https://openalex.org/I165932596"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5053518180"],"corresponding_institution_ids":["https://openalex.org/I165932596"],"apc_list":null,"apc_paid":null,"fwci":0.4498,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.65227988,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":null,"issue":null,"first_page":"555","last_page":"568"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12029","display_name":"DNA and Biological Computing","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/T12029","display_name":"DNA and Biological Computing","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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9962999820709229,"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/T12784","display_name":"Modular Robots and Swarm Intelligence","score":0.9945999979972839,"subfield":{"id":"https://openalex.org/subfields/2210","display_name":"Mechanical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8041995167732239},{"id":"https://openalex.org/keywords/random-access","display_name":"Random access","score":0.6511833071708679},{"id":"https://openalex.org/keywords/partition","display_name":"Partition (number theory)","score":0.6191580295562744},{"id":"https://openalex.org/keywords/leverage","display_name":"Leverage (statistics)","score":0.5069385170936584},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.47646450996398926},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.4473963975906372},{"id":"https://openalex.org/keywords/data-structure","display_name":"Data structure","score":0.4471816122531891},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.42771345376968384},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.42024290561676025},{"id":"https://openalex.org/keywords/block","display_name":"Block (permutation group theory)","score":0.4148143529891968},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.21421796083450317},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2090510129928589},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.2057167887687683},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.11183074116706848}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8041995167732239},{"id":"https://openalex.org/C101722063","wikidata":"https://www.wikidata.org/wiki/Q218825","display_name":"Random access","level":2,"score":0.6511833071708679},{"id":"https://openalex.org/C42812","wikidata":"https://www.wikidata.org/wiki/Q1082910","display_name":"Partition (number theory)","level":2,"score":0.6191580295562744},{"id":"https://openalex.org/C153083717","wikidata":"https://www.wikidata.org/wiki/Q6535263","display_name":"Leverage (statistics)","level":2,"score":0.5069385170936584},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.47646450996398926},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.4473963975906372},{"id":"https://openalex.org/C162319229","wikidata":"https://www.wikidata.org/wiki/Q175263","display_name":"Data structure","level":2,"score":0.4471816122531891},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.42771345376968384},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.42024290561676025},{"id":"https://openalex.org/C2777210771","wikidata":"https://www.wikidata.org/wiki/Q4927124","display_name":"Block (permutation group theory)","level":2,"score":0.4148143529891968},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.21421796083450317},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2090510129928589},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.2057167887687683},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.11183074116706848},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/3613424.3614308","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3613424.3614308","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3613424.3614308","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"56th Annual IEEE/ACM International Symposium on Microarchitecture","raw_type":"proceedings-article"},{"id":"pmh:oai:arXiv.org:2212.13447","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2212.13447","pdf_url":"https://arxiv.org/pdf/2212.13447","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"}],"best_oa_location":{"id":"doi:10.1145/3613424.3614308","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3613424.3614308","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3613424.3614308","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"56th Annual IEEE/ACM International Symposium on Microarchitecture","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1837095042","display_name":null,"funder_award_id":"FCT-RP1","funder_id":"https://openalex.org/F4554660148","funder_display_name":"Advanced Research and Technology Innovation Centre, College of Design and Engineering, National University of Singapore"},{"id":"https://openalex.org/G7623002682","display_name":null,"funder_award_id":"A-0008143-00-00 and A-0008024-00-00","funder_id":"https://openalex.org/F4320320751","funder_display_name":"Ministry of Education - Singapore"}],"funders":[{"id":"https://openalex.org/F4320308943","display_name":"Microsoft Research","ror":"https://ror.org/00d0nc645"},{"id":"https://openalex.org/F4320320698","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49"},{"id":"https://openalex.org/F4320320751","display_name":"Ministry of Education - Singapore","ror":"https://ror.org/01kcva023"},{"id":"https://openalex.org/F4320334779","display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","ror":"https://ror.org/00snfqn58"},{"id":"https://openalex.org/F4554660148","display_name":"Advanced Research and Technology Innovation Centre, College of Design and Engineering, National University of Singapore","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4313304833.pdf","grobid_xml":"https://content.openalex.org/works/W4313304833.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1946587648","https://openalex.org/W2025383314","https://openalex.org/W2114487425","https://openalex.org/W2333320475","https://openalex.org/W2615068531","https://openalex.org/W2617487728","https://openalex.org/W2788257106","https://openalex.org/W2883581108","https://openalex.org/W2892361591","https://openalex.org/W2897609915","https://openalex.org/W2935677582","https://openalex.org/W2944582089","https://openalex.org/W2947129118","https://openalex.org/W2951269465","https://openalex.org/W3003918453","https://openalex.org/W3015846461","https://openalex.org/W3034933099","https://openalex.org/W3042993760","https://openalex.org/W3164788607","https://openalex.org/W3166105599","https://openalex.org/W3184008446","https://openalex.org/W3190296759","https://openalex.org/W3193252214","https://openalex.org/W3213101281","https://openalex.org/W4213203727","https://openalex.org/W4224987325","https://openalex.org/W4226211215","https://openalex.org/W4237042838","https://openalex.org/W4281668376","https://openalex.org/W4289655154"],"related_works":["https://openalex.org/W3133183159","https://openalex.org/W2952222336","https://openalex.org/W3117544412","https://openalex.org/W4297872561","https://openalex.org/W2116633494","https://openalex.org/W2389214306","https://openalex.org/W4235240664","https://openalex.org/W2965083567","https://openalex.org/W2951701061","https://openalex.org/W1838576100"],"abstract_inverted_index":{"We":[0,80],"propose":[1],"a":[2,50,62,137,146,169,187,191,213],"novel":[3],"and":[4,21,29,32,74,84,98,107,120,176,212,219],"flexible":[5],"DNA-storage":[6],"architecture,":[7],"which":[8,70,87],"divides":[9],"the":[10,82,88,125,129,141,173,180,183,196,206,209,227],"storage":[11,68,109],"space":[12,91],"into":[13,101,148],"fixed-size":[14],"units":[15],"(blocks)":[16],"that":[17,151,162],"can":[18,95,163],"be":[19,96,164],"independently":[20,76],"efficiently":[22],"accessed":[23],"at":[24],"random":[25],"for":[26,139,221],"both":[27],"read":[28],"write":[30],"operations,":[31],"further":[33],"allows":[34,155],"efficient":[35,115],"sequential":[36,121],"access":[37],"to":[38,44,104,157,167,185],"consecutive":[39],"data":[40,118],"blocks.":[41],"In":[42],"contrast":[43],"prior":[45],"work,":[46],"in":[47,216],"our":[48,102],"architecture":[49],"pair":[51],"of":[52,56,77,92,117,128,132,145,172,182,193,208,223],"random-access":[53],"PCR":[54,133,159],"primers":[55,161],"length":[57],"20":[58],"does":[59],"not":[60],"define":[61,136],"single":[63],"object,":[64],"but":[65],"an":[66,149],"independent":[67],"partition,":[69],"is":[71,152],"internally":[72],"blocked":[73],"managed":[75],"other":[78],"partitions.":[79],"expose":[81],"flexibility":[83],"constraints":[85],"with":[86,160,198],"internal":[89,142,174],"address":[90],"each":[93],"partition":[94,147,197],"managed,":[97],"incorporate":[99],"them":[100],"design":[103],"provide":[105],"rich":[106],"functional":[108],"semantics,":[110],"such":[111],"as":[112],"block-storage":[113],"organization,":[114],"implementation":[116],"updates,":[119],"access.":[122],"To":[123],"leverage":[124],"full":[126],"power":[127],"prefix-based":[130],"nature":[131],"addressing,":[134],"we":[135],"methodology":[138],"transforming":[140],"addressing":[143],"scheme":[144],"equivalent":[150],"PCR-compatible.":[153],"This":[154],"us":[156],"run":[158],"variably":[165],"elongated":[166],"include":[168],"desired":[170],"part":[171],"address,":[175],"thus":[177],"narrow":[178],"down":[179],"scope":[181],"reaction":[184],"retrieve":[186],"specific":[188],"block":[189],"or":[190],"range":[192],"blocks":[194,225],"within":[195,226],"sufficiently":[199],"high":[200],"accuracy.":[201],"Our":[202],"wetlab":[203],"evaluation":[204],"demonstrates":[205],"practicality":[207],"proposed":[210],"ideas":[211],"140x":[214],"reduction":[215],"sequencing":[217],"cost":[218],"latency":[220],"retrieval":[222],"individual":[224],"partition.":[228]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
