{"id":"https://openalex.org/W2293355300","doi":"https://doi.org/10.1109/isit.2016.7541607","title":"Design of Geometric Molecular Bonds","display_name":"Design of Geometric Molecular Bonds","publication_year":2016,"publication_date":"2016-07-01","ids":{"openalex":"https://openalex.org/W2293355300","doi":"https://doi.org/10.1109/isit.2016.7541607","mag":"2293355300"},"language":"en","primary_location":{"id":"doi:10.1109/isit.2016.7541607","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isit.2016.7541607","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2016 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/1602.01600","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5061641572","display_name":"David Doty","orcid":"https://orcid.org/0000-0002-3922-172X"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"David Doty","raw_affiliation_strings":["Department of Computer Science, University of California, Davis, Davis, CA","Univ. of California Davis"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of California, Davis, Davis, CA","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Univ. of California Davis","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5087928095","display_name":"Andrew Winslow","orcid":null},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Andrew Winslow","raw_affiliation_strings":["D\u00e9partment d'Informatique, Universit\u00e9 Libre de Bruxelles, Brussels, Belgium","Universit\u00e9 libre de Bruxelles"],"affiliations":[{"raw_affiliation_string":"D\u00e9partment d'Informatique, Universit\u00e9 Libre de Bruxelles, Brussels, Belgium","institution_ids":["https://openalex.org/I132053463"]},{"raw_affiliation_string":"Universit\u00e9 libre de Bruxelles","institution_ids":["https://openalex.org/I132053463"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5061641572"],"corresponding_institution_ids":["https://openalex.org/I84218800"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.00645643,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"3","issue":"1","first_page":"13","last_page":"1793"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10207","display_name":"Advanced biosensing and bioanalysis techniques","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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.9988999962806702,"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/T12029","display_name":"DNA and Biological Computing","score":0.9965000152587891,"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/stacking","display_name":"Stacking","score":0.6461519598960876},{"id":"https://openalex.org/keywords/sticky-and-blunt-ends","display_name":"Sticky and blunt ends","score":0.6126272082328796},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.5783500671386719},{"id":"https://openalex.org/keywords/orthogonality","display_name":"Orthogonality","score":0.5554251074790955},{"id":"https://openalex.org/keywords/charge","display_name":"Charge (physics)","score":0.44436508417129517},{"id":"https://openalex.org/keywords/base-pair","display_name":"Base pair","score":0.3839796185493469},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.37184804677963257},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3530460596084595},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.33465611934661865},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3256114423274994},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.32495254278182983},{"id":"https://openalex.org/keywords/geometry","display_name":"Geometry","score":0.2202862799167633},{"id":"https://openalex.org/keywords/quantum-mechanics","display_name":"Quantum mechanics","score":0.19364216923713684},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.09943711757659912}],"concepts":[{"id":"https://openalex.org/C33347731","wikidata":"https://www.wikidata.org/wiki/Q285210","display_name":"Stacking","level":2,"score":0.6461519598960876},{"id":"https://openalex.org/C195116880","wikidata":"https://www.wikidata.org/wiki/Q4859565","display_name":"Sticky and blunt ends","level":4,"score":0.6126272082328796},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5783500671386719},{"id":"https://openalex.org/C17137986","wikidata":"https://www.wikidata.org/wiki/Q215067","display_name":"Orthogonality","level":2,"score":0.5554251074790955},{"id":"https://openalex.org/C188082385","wikidata":"https://www.wikidata.org/wiki/Q73792","display_name":"Charge (physics)","level":2,"score":0.44436508417129517},{"id":"https://openalex.org/C185581394","wikidata":"https://www.wikidata.org/wiki/Q145911","display_name":"Base pair","level":3,"score":0.3839796185493469},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.37184804677963257},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3530460596084595},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.33465611934661865},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3256114423274994},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32495254278182983},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.2202862799167633},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.19364216923713684},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.09943711757659912},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[],"locations_count":6,"locations":[{"id":"doi:10.1109/isit.2016.7541607","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isit.2016.7541607","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2016 IEEE International Symposium on Information Theory (ISIT)","raw_type":"proceedings-article"},{"id":"doi:10.1109/tmbmc.2017.2668382","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tmbmc.2017.2668382","pdf_url":null,"source":{"id":"https://openalex.org/S2490853239","display_name":"IEEE Transactions on Molecular Biological and Multi-Scale Communications","issn_l":"2332-7804","issn":["2332-7804","2372-2061"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Molecular, Biological and Multi-Scale Communications","raw_type":"journal-article"},{"id":"pmh:oai:arXiv.org:1602.01600","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1602.01600","pdf_url":"https://arxiv.org/pdf/1602.01600","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":"","raw_type":"text"},{"id":"mag:2293355300","is_oa":true,"landing_page_url":"https://arxiv.org/pdf/1602.01600.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":"pmh:oai:dipot.ulb.ac.be:2013/240010","is_oa":false,"landing_page_url":"http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/240010","pdf_url":null,"source":{"id":"https://openalex.org/S4306401063","display_name":"D\u00e9p\u00f4t institutionnel de l'Universit\u00e9 libre de Bruxelles (Universit\u00e9 Libre de Bruxelles)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I132053463","host_organization_name":"Universit\u00e9 Libre de Bruxelles","host_organization_lineage":["https://openalex.org/I132053463"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proceedings (IEEE International Symposium on Information Theory. Print), 2016-August","raw_type":"info:ulb-repo/semantics/openurl/article"},{"id":"doi:10.48550/arxiv.1602.01600","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.1602.01600","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":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:1602.01600","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1602.01600","pdf_url":"https://arxiv.org/pdf/1602.01600","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":"","raw_type":"text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1866065346","display_name":null,"funder_award_id":"1619343","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2717034653","display_name":null,"funder_award_id":"1317694","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4692275776","display_name":null,"funder_award_id":"1422152","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G473395591","display_name":null,"funder_award_id":"CCF-1422152","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5594358474","display_name":null,"funder_award_id":"multiple","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5921281487","display_name":null,"funder_award_id":"number","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6507447573","display_name":null,"funder_award_id":"several","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6951477613","display_name":null,"funder_award_id":"1219274","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7908228807","display_name":null,"funder_award_id":"Molecular","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","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/W2293355300.pdf","grobid_xml":"https://content.openalex.org/works/W2293355300.grobid-xml"},"referenced_works_count":39,"referenced_works":["https://openalex.org/W28353286","https://openalex.org/W1486301575","https://openalex.org/W1506279560","https://openalex.org/W1556174207","https://openalex.org/W1804825143","https://openalex.org/W1970529854","https://openalex.org/W1977312644","https://openalex.org/W1988514913","https://openalex.org/W1993653705","https://openalex.org/W2010986587","https://openalex.org/W2019376824","https://openalex.org/W2020433043","https://openalex.org/W2038125628","https://openalex.org/W2044709436","https://openalex.org/W2062802768","https://openalex.org/W2063273637","https://openalex.org/W2070341335","https://openalex.org/W2074993099","https://openalex.org/W2079425200","https://openalex.org/W2086234710","https://openalex.org/W2099215797","https://openalex.org/W2100473511","https://openalex.org/W2111613892","https://openalex.org/W2112333437","https://openalex.org/W2114200088","https://openalex.org/W2126961173","https://openalex.org/W2151366879","https://openalex.org/W2155782919","https://openalex.org/W2163041701","https://openalex.org/W2275159011","https://openalex.org/W2489161884","https://openalex.org/W2496189089","https://openalex.org/W2604600966","https://openalex.org/W2950819154","https://openalex.org/W2963711624","https://openalex.org/W4205545339","https://openalex.org/W6630382532","https://openalex.org/W6633213257","https://openalex.org/W6736120180"],"related_works":["https://openalex.org/W2963711624","https://openalex.org/W1979566327","https://openalex.org/W2739038728","https://openalex.org/W2003324251","https://openalex.org/W2103655374","https://openalex.org/W2231951644","https://openalex.org/W2319911044","https://openalex.org/W2312449598","https://openalex.org/W1944647164","https://openalex.org/W2093909979","https://openalex.org/W2057299026","https://openalex.org/W1963694132","https://openalex.org/W2185714478","https://openalex.org/W2546466003","https://openalex.org/W2465285338","https://openalex.org/W2158066119","https://openalex.org/W2067459734","https://openalex.org/W2013616819","https://openalex.org/W120015477","https://openalex.org/W3209228213"],"abstract_inverted_index":{"An":[0],"example":[1],"of":[2,10,20,38,76,79,93,103,174],"a":[3,63],"nonspecific":[4,65,95],"molecular":[5],"bond":[6,67],"is":[7,171],"the":[8,36,39,74,99,135,156,172],"affinity":[9,37],"any":[11,15,77],"positive":[12],"charge":[13,17],"for":[14,23,43,47,101],"negative":[16],"(like-unlike),":[18],"or":[19,50],"nonpolar":[21],"material":[22],"itself":[24],"when":[25,121],"in":[26,56,177],"aqueous":[27],"solution":[28],"(like-like).":[29],"This":[30],"contrasts":[31],"specific":[32,87],"bonds":[33],"such":[34],"as":[35,139],"DNA":[40,57,69,80,137],"base":[41],"A":[42],"T,":[44],"but":[45],"not":[46,110],"C,":[48],"G,":[49],"another":[51],"A.":[52],"Recent":[53],"experimental":[54],"breakthroughs":[55],"nanotechnology":[58],"[4],":[59],"[11]":[60],"demonstrate":[61],"that":[62,71,105,132],"particular":[64],"like-like":[66],"(\u201cblunt-end":[68],"stacking\u201d":[70],"occurs":[72],"between":[73],"ends":[75],"pair":[78],"double-helices)":[81],"can":[82],"be":[83],"used":[84],"to":[85,112,155],"create":[86],"\u201cmacrobonds\u201d":[88],"by":[89,145,161],"careful":[90],"geometric":[91,129,149],"arrangement":[92],"many":[94],"blunt":[96],"ends,":[97],"motivating":[98],"need":[100],"sets":[102],"macrobonds":[104,109,138],"are":[106],"orthogonal:":[107],"two":[108],"intended":[111],"bind":[113],"should":[114],"have":[115],"relatively":[116],"low":[117],"binding":[118],"strength,":[119],"even":[120],"misaligned.":[122],"To":[123],"address":[124],"this":[125],"need,":[126],"we":[127],"introduce":[128],"orthogonal":[130,150,158],"codes":[131,151,159],"abstractly":[133],"model":[134],"engineered":[136],"two-dimensional":[140],"binary":[141],"codewords.":[142],"While":[143],"motivated":[144],"completely":[146],"different":[147],"applications,":[148],"share":[152],"similar":[153],"features":[154],"optical":[157],"studied":[160],"Chung,":[162],"Salehi,":[163],"and":[164],"Wei":[165],"[3].":[166],"The":[167],"main":[168],"technical":[169],"difference":[170],"importance":[173],"2D":[175],"geometry":[176],"defining":[178],"codeword":[179],"orthogonality.":[180]},"counts_by_year":[],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
