{"id":"https://openalex.org/W3126885647","doi":"https://doi.org/10.1109/isit45174.2021.9518236","title":"On Coding for an Abstracted Nanopore Channel for DNA Storage","display_name":"On Coding for an Abstracted Nanopore Channel for DNA Storage","publication_year":2021,"publication_date":"2021-07-12","ids":{"openalex":"https://openalex.org/W3126885647","doi":"https://doi.org/10.1109/isit45174.2021.9518236","mag":"3126885647"},"language":"en","primary_location":{"id":"doi:10.1109/isit45174.2021.9518236","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isit45174.2021.9518236","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2021 IEEE International Symposium on Information Theory (ISIT)","raw_type":"proceedings-article"},"type":"preprint","indexed_in":["arxiv","crossref","datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/2102.01839","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008139466","display_name":"Reyna Hulett","orcid":null},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Reyna Hulett","raw_affiliation_strings":["Stanford University,Stanford,CA,94305","Stanford University, Stanford, CA 94305"],"affiliations":[{"raw_affiliation_string":"Stanford University,Stanford,CA,94305","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University, Stanford, CA 94305","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086012490","display_name":"Shubham Chandak","orcid":"https://orcid.org/0000-0002-1130-9762"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shubham Chandak","raw_affiliation_strings":["Stanford University,Stanford,CA,94305","Stanford University, Stanford, CA 94305"],"affiliations":[{"raw_affiliation_string":"Stanford University,Stanford,CA,94305","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University, Stanford, CA 94305","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022963784","display_name":"Mary Wootters","orcid":"https://orcid.org/0000-0002-2345-2531"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mary Wootters","raw_affiliation_strings":["Stanford University,Stanford,CA,94305","Stanford University, Stanford, CA 94305"],"affiliations":[{"raw_affiliation_string":"Stanford University,Stanford,CA,94305","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University, Stanford, CA 94305","institution_ids":["https://openalex.org/I97018004"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5008139466"],"corresponding_institution_ids":["https://openalex.org/I97018004"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.0074498,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"2465","last_page":"2470"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12029","display_name":"DNA and Biological Computing","score":1.0,"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":1.0,"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":0.9987999796867371,"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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9980000257492065,"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/nanopore-sequencing","display_name":"Nanopore sequencing","score":0.8982219696044922},{"id":"https://openalex.org/keywords/nanopore","display_name":"Nanopore","score":0.7510774731636047},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.640451192855835},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.6020853519439697},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5994850993156433},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.49881815910339355},{"id":"https://openalex.org/keywords/dna-sequencer","display_name":"DNA sequencer","score":0.4509805738925934},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.4286472201347351},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.35900548100471497},{"id":"https://openalex.org/keywords/nanotechnology","display_name":"Nanotechnology","score":0.25042787194252014},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20981812477111816},{"id":"https://openalex.org/keywords/computer-security","display_name":"Computer security","score":0.1325441598892212},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1209237277507782},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.09168344736099243},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.08096379041671753}],"concepts":[{"id":"https://openalex.org/C126513998","wikidata":"https://www.wikidata.org/wiki/Q8973627","display_name":"Nanopore sequencing","level":4,"score":0.8982219696044922},{"id":"https://openalex.org/C141795571","wikidata":"https://www.wikidata.org/wiki/Q580942","display_name":"Nanopore","level":2,"score":0.7510774731636047},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.640451192855835},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.6020853519439697},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5994850993156433},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.49881815910339355},{"id":"https://openalex.org/C70712619","wikidata":"https://www.wikidata.org/wiki/Q908889","display_name":"DNA sequencer","level":4,"score":0.4509805738925934},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.4286472201347351},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.35900548100471497},{"id":"https://openalex.org/C171250308","wikidata":"https://www.wikidata.org/wiki/Q11468","display_name":"Nanotechnology","level":1,"score":0.25042787194252014},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20981812477111816},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.1325441598892212},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1209237277507782},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.09168344736099243},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.08096379041671753},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1109/isit45174.2021.9518236","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isit45174.2021.9518236","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2021 IEEE International Symposium on Information Theory (ISIT)","raw_type":"proceedings-article"},{"id":"pmh:oai:arXiv.org:2102.01839","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2102.01839","pdf_url":"https://arxiv.org/pdf/2102.01839","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"text"},{"id":"mag:3126885647","is_oa":true,"landing_page_url":"https://arxiv.org/pdf/2102.01839.pdf","pdf_url":null,"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":"arXiv (Cornell University)","raw_type":null},{"id":"doi:10.48550/arxiv.2102.01839","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2102.01839","pdf_url":null,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:2102.01839","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2102.01839","pdf_url":"https://arxiv.org/pdf/2102.01839","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1603544127","display_name":null,"funder_award_id":"1807371","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2499887605","display_name":null,"funder_award_id":"DGE-1656518","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G320138474","display_name":null,"funder_award_id":"-1656518","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5155150688","display_name":null,"funder_award_id":"CCF-1844628","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5267932457","display_name":null,"funder_award_id":"1656518","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6451375130","display_name":"CAREER: New Fundamentals in Coding Theory","funder_award_id":"1844628","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3126885647.pdf","grobid_xml":"https://content.openalex.org/works/W3126885647.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W186403072","https://openalex.org/W1023119160","https://openalex.org/W2025383314","https://openalex.org/W2054801208","https://openalex.org/W2064838169","https://openalex.org/W2162980030","https://openalex.org/W2340541605","https://openalex.org/W2471091339","https://openalex.org/W2550586733","https://openalex.org/W2570365641","https://openalex.org/W2592122940","https://openalex.org/W2615068531","https://openalex.org/W2742107201","https://openalex.org/W2788257106","https://openalex.org/W2791982652","https://openalex.org/W2936307398","https://openalex.org/W2944582089","https://openalex.org/W2947129118","https://openalex.org/W2948686875","https://openalex.org/W2949340385","https://openalex.org/W2950993016","https://openalex.org/W2951269465","https://openalex.org/W2955617048","https://openalex.org/W2967166178","https://openalex.org/W2975606378","https://openalex.org/W2976482814","https://openalex.org/W3015526058","https://openalex.org/W6635694139","https://openalex.org/W6729804952"],"related_works":["https://openalex.org/W3197362936","https://openalex.org/W2791982652","https://openalex.org/W2912254201","https://openalex.org/W2750584080","https://openalex.org/W2908498804","https://openalex.org/W3199535105","https://openalex.org/W2951742112","https://openalex.org/W2783202621","https://openalex.org/W2976376566","https://openalex.org/W2887778638","https://openalex.org/W2963561675","https://openalex.org/W2897609915","https://openalex.org/W2552800971","https://openalex.org/W2949271678","https://openalex.org/W3131711615","https://openalex.org/W2162802154","https://openalex.org/W3204888059","https://openalex.org/W2990976685","https://openalex.org/W3189256138","https://openalex.org/W2986420050"],"abstract_inverted_index":{"In":[0],"the":[1,23,65,82,101],"emerging":[2],"field":[3],"of":[4,81,103],"DNA":[5,11,60],"storage,":[6],"data":[7,16],"is":[8,17,28,43,67],"encoded":[9],"as":[10],"sequences":[12],"and":[13,46,97,107,113],"stored.":[14],"The":[15],"read":[18],"out":[19],"again":[20],"by":[21],"sequencing":[22,27,31],"stored":[24],"DNA.":[25],"Nanopore":[26],"a":[29,76],"new":[30],"technology":[32],"that":[33,72,89],"has":[34],"many":[35],"advantages":[36],"over":[37],"other":[38],"methods;":[39],"in":[40],"particular,":[41],"it":[42],"cheap,":[44],"portable,":[45],"can":[47],"support":[48],"longer":[49],"reads.":[50],"While":[51],"several":[52],"practical":[53],"coding":[54,111],"schemes":[55,112],"have":[56],"been":[57],"developed":[58],"for":[59],"storage":[61],"with":[62],"nanopore":[63,83],"sequencing,":[64],"theory":[66,98],"not":[68],"well":[69],"understood.":[70],"Towards":[71],"end,":[73],"we":[74,108],"study":[75],"highly":[77],"abstracted":[78,105],"(deterministic)":[79],"version":[80],"sequencer,":[84],"which":[85],"highlights":[86],"key":[87],"features":[88],"make":[90],"its":[91],"analysis":[92],"difficult.":[93],"We":[94],"develop":[95],"methods":[96],"to":[99],"understand":[100],"capacity":[102],"our":[104],"model,":[106],"propose":[109],"efficient":[110],"algorithms.":[114]},"counts_by_year":[],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
