{"id":"https://openalex.org/W2321813301","doi":"https://doi.org/10.1021/jp309486c","title":"Distinguishing Single DNA Nucleotides Based on Their Times of Flight Through Nanoslits: A Molecular Dynamics Simulation Study","display_name":"Distinguishing Single DNA Nucleotides Based on Their Times of Flight Through Nanoslits: A Molecular Dynamics Simulation Study","publication_year":2013,"publication_date":"2013-03-06","ids":{"openalex":"https://openalex.org/W2321813301","doi":"https://doi.org/10.1021/jp309486c","mag":"2321813301","pmid":"https://pubmed.ncbi.nlm.nih.gov/23461845"},"language":"en","primary_location":{"id":"doi:10.1021/jp309486c","doi":"https://doi.org/10.1021/jp309486c","is_oa":false,"landing_page_url":"https://doi.org/10.1021/jp309486c","pdf_url":null,"source":{"id":"https://openalex.org/S185621672","display_name":"The Journal of Physical Chemistry B","issn_l":"1520-5207","issn":["1520-5207","1520-6106"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-c","jufo-1","ki-jl-1","medline","norway-1","poland-140","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Journal of Physical Chemistry B","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"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/A5069979457","display_name":"Brian Novak","orcid":"https://orcid.org/0000-0001-9508-6908","observed_orcids":["https://orcid.org/0000-0001-9508-6908"]},"institutions":[{"id":"https://openalex.org/I121820613","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57","country_code":"US","type":"education","lineage":["https://openalex.org/I121820613"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brian R. Novak","raw_affiliation_strings":["Department of Mechanical\rand\rIndustrial Engineering, and Center for Computation and\rTechnology, Louisiana State University, Baton Rouge, Louisiana 70803, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mechanical\rand\rIndustrial Engineering, and Center for Computation and\rTechnology, Louisiana State University, Baton Rouge, Louisiana 70803, United States","institution_ids":["https://openalex.org/I121820613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022362432","display_name":"Dorel Moldovan","orcid":"https://orcid.org/0000-0001-7850-4207","observed_orcids":["https://orcid.org/0000-0001-7850-4207"]},"institutions":[{"id":"https://openalex.org/I121820613","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57","country_code":"US","type":"education","lineage":["https://openalex.org/I121820613"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Dorel Moldovan","raw_affiliation_strings":["Department of Mechanical\rand\rIndustrial Engineering, and Center for Computation and\rTechnology, Louisiana State University, Baton Rouge, Louisiana 70803, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mechanical\rand\rIndustrial Engineering, and Center for Computation and\rTechnology, Louisiana State University, Baton Rouge, Louisiana 70803, United States","institution_ids":["https://openalex.org/I121820613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114009501","display_name":"Dimitris E. Nikitopoulos","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I121820613","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57","country_code":"US","type":"education","lineage":["https://openalex.org/I121820613"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dimitris E. Nikitopoulos","raw_affiliation_strings":["Department of Mechanical\rand\rIndustrial Engineering, and Center for Computation and\rTechnology, Louisiana State University, Baton Rouge, Louisiana 70803, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mechanical\rand\rIndustrial Engineering, and Center for Computation and\rTechnology, Louisiana State University, Baton Rouge, Louisiana 70803, United States","institution_ids":["https://openalex.org/I121820613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038208939","display_name":"Steven A. Soper","orcid":"https://orcid.org/0000-0002-8292-7058","observed_orcids":["https://orcid.org/0000-0002-8292-7058"]},"institutions":[{"id":"https://openalex.org/I137902535","display_name":"North Carolina State University","ror":"https://ror.org/04tj63d06","country_code":"US","type":"education","lineage":["https://openalex.org/I137902535"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steven A. Soper","raw_affiliation_strings":["North Carolina State University, Raleigh, North Carolina 27695, United\rStates"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"North Carolina State University, Raleigh, North Carolina 27695, United\rStates","institution_ids":["https://openalex.org/I137902535"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5022362432"],"corresponding_institution_ids":["https://openalex.org/I121820613"],"apc_list":null,"apc_paid":null,"fwci":1.6529,"has_fulltext":false,"cited_by_count":19,"citation_normalized_percentile":{"value":0.83109205,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"117","issue":"12","first_page":"3271","last_page":"3279"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11582","display_name":"Nanopore and Nanochannel Transport Studies","score":0.986299991607666,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11582","display_name":"Nanopore and Nanochannel Transport Studies","score":0.986299991607666,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10412","display_name":"Microfluidic and Capillary Electrophoresis Applications","score":0.012900000438094139,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12850","display_name":"Field-Flow Fractionation Techniques","score":9.999999747378752e-05,"subfield":{"id":"https://openalex.org/subfields/2206","display_name":"Computational Mechanics"},"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/nanoslits","display_name":"nanoslits","score":0.7310000061988831},{"id":"https://openalex.org/keywords/nanochannels","display_name":"nanochannels","score":0.7139999866485596},{"id":"https://openalex.org/keywords/pressure-driven-flow","display_name":"pressure-driven flow","score":0.6809999942779541},{"id":"https://openalex.org/keywords/transit-time","display_name":"transit time","score":0.5379999876022339},{"id":"https://openalex.org/keywords/hydrophobic-walls","display_name":"hydrophobic walls","score":0.7910000085830688},{"id":"https://openalex.org/keywords/analysis-time","display_name":"analysis time","score":0.4699999988079071},{"id":"https://openalex.org/keywords/surface-chemistry","display_name":"surface chemistry","score":0.6269999742507935},{"id":"https://openalex.org/keywords/molecular-transport","display_name":"molecular transport","score":0.3580000102519989}],"concepts":[{"id":"https://openalex.org/C512185932","wikidata":"https://www.wikidata.org/wiki/Q28745","display_name":"Nucleotide","level":3,"score":0.7313860058784485},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.6379204988479614},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5587723255157471},{"id":"https://openalex.org/C145912823","wikidata":"https://www.wikidata.org/wiki/Q113558","display_name":"Dynamics (music)","level":2,"score":0.47669312357902527},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3703550696372986},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3589497208595276},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.3285008370876312},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.29931557178497314},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24553722143173218},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.15442654490470886},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.14581406116485596},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.05985531210899353},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000327","descriptor_name":"Adsorption","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011312","descriptor_name":"Pressure","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014867","descriptor_name":"Water","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D049329","descriptor_name":"Nanostructures","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057927","descriptor_name":"Hydrophobic and Hydrophilic Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1021/jp309486c","doi":"https://doi.org/10.1021/jp309486c","is_oa":false,"landing_page_url":"https://doi.org/10.1021/jp309486c","pdf_url":null,"source":{"id":"https://openalex.org/S185621672","display_name":"The Journal of Physical Chemistry B","issn_l":"1520-5207","issn":["1520-5207","1520-6106"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-c","jufo-1","ki-jl-1","medline","norway-1","poland-140","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Journal of Physical Chemistry B","raw_type":"journal-article"},{"id":"pmid:23461845","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23461845","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The journal of physical chemistry. B","raw_type":"Journal Article"},{"id":"pmh:oai:repository.lsu.edu:mechanical_engineering_pubs-2734","doi":null,"is_oa":false,"landing_page_url":"https://repository.lsu.edu/mechanical_engineering_pubs/1734","pdf_url":null,"source":{"id":"https://openalex.org/S4210169993","display_name":"Civil War Book Review","issn_l":"1528-6592","issn":["1528-6592"],"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/P4310315936","host_organization_name":"Louisiana State University","host_organization_lineage":["https://openalex.org/P4310315936"],"host_organization_lineage_names":["Louisiana State University"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Publications","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":49,"referenced_works":["https://openalex.org/W1487219881","https://openalex.org/W1530211041","https://openalex.org/W1531417034","https://openalex.org/W1964730348","https://openalex.org/W1966972080","https://openalex.org/W1967737979","https://openalex.org/W1972872586","https://openalex.org/W1983874432","https://openalex.org/W1984071764","https://openalex.org/W1986698926","https://openalex.org/W1987934864","https://openalex.org/W1989753444","https://openalex.org/W1990968510","https://openalex.org/W1993979141","https://openalex.org/W1994764057","https://openalex.org/W1998102597","https://openalex.org/W2001145406","https://openalex.org/W2005485153","https://openalex.org/W2010142422","https://openalex.org/W2010808646","https://openalex.org/W2010936313","https://openalex.org/W2015664141","https://openalex.org/W2018427907","https://openalex.org/W2019465613","https://openalex.org/W2023965095","https://openalex.org/W2029667189","https://openalex.org/W2030760447","https://openalex.org/W2033350555","https://openalex.org/W2039129312","https://openalex.org/W2042168852","https://openalex.org/W2049093445","https://openalex.org/W2050550588","https://openalex.org/W2063211137","https://openalex.org/W2064364774","https://openalex.org/W2066504493","https://openalex.org/W2083782746","https://openalex.org/W2086713734","https://openalex.org/W2102170521","https://openalex.org/W2108058966","https://openalex.org/W2118021064","https://openalex.org/W2118579429","https://openalex.org/W2121684195","https://openalex.org/W2132341951","https://openalex.org/W2139628267","https://openalex.org/W2143272511","https://openalex.org/W2151252853","https://openalex.org/W2167381746","https://openalex.org/W3030856093","https://openalex.org/W4249875616"],"related_works":["https://openalex.org/W2772876661","https://openalex.org/W3022338549","https://openalex.org/W3123621098","https://openalex.org/W2423544833","https://openalex.org/W1797536259","https://openalex.org/W2883001722","https://openalex.org/W2560516774","https://openalex.org/W2594604286","https://openalex.org/W4372054386","https://openalex.org/W2586539288"],"abstract_inverted_index":{"Transport":[0],"of":[1,27,29,88,115,141,168],"single":[2,30],"molecules":[3],"in":[4,34,48,135],"nanochannels":[5],"or":[6],"nanoslits":[7],"might":[8],"be":[9,157],"used":[10],"to":[11,40,137,165],"identify":[12],"them":[13],"via":[14],"their":[15],"transit":[16],"(flight)":[17],"times.":[18,76],"In":[19],"this":[20],"paper,":[21],"we":[22],"present":[23],"molecular":[24],"dynamics":[25],"simulations":[26],"transport":[28],"deoxynucleotide":[31],"5'-monophoshates":[32],"(dNMP)":[33],"aqueous":[35],"solution":[36],"under":[37],"pressure-driven":[38],"flow,":[39],"average":[41],"velocities":[42,132],"between":[43],"0.4":[44],"and":[45,70,98,121,144],"1.0":[46],"m/s,":[47],"3":[49],"nm":[50],"wide":[51],"slits":[52],"with":[53],"hydrophobic":[54],"walls.":[55],"The":[56],"simulation":[57],"results":[58],"show":[59],"that,":[60,134],"while":[61],"moving":[62],"along":[63],"the":[64,66,73,78,80,89,99,113,116,123,139,146,153,169],"slit,":[65],"mononucleotides":[67],"are":[68,110],"adsorbed":[69],"desorbed":[71],"from":[72],"walls":[74],"multiple":[75],"For":[77],"simulations,":[79],"estimated":[81],"minimum":[82,100,174],"slit":[83],"length":[84],"required":[85],"for":[86,176],"separation":[87],"dNMP":[90,104,131,150],"flight":[91],"time":[92,102,148,171],"distributions":[93],"is":[94,105],"about":[95,106],"5.9":[96],"\u03bcm,":[97],"analysis":[101,128,147,170],"per":[103,149],"10":[107],"\u03bcs.":[108],"These":[109],"determined":[111],"by":[112,122],"nature":[114],"nucleotide-wall":[117],"interactions,":[118],"channel":[119],"width,":[120],"flow":[124],"characteristics.":[125],"A":[126],"simple":[127],"using":[129],"realistic":[130],"shows":[133],"order":[136],"reduce":[138],"effects":[140],"diffusional":[142],"broadening":[143],"keep":[145],"reasonably":[151],"small,":[152],"nucleotide":[154],"velocity":[155],"should":[156],"relatively":[158],"high.":[159],"Tailored":[160],"surface":[161],"chemistry":[162],"could":[163],"lead":[164],"further":[166],"reduction":[167],"toward":[172],"its":[173],"value":[175],"a":[177],"given":[178],"driving":[179],"force.":[180]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":6},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}