{"id":"https://openalex.org/W2346016685","doi":"https://doi.org/10.1093/nar/gkw381","title":"DNATCO: assignment of DNA conformers at dnatco.org","display_name":"DNATCO: assignment of DNA conformers at dnatco.org","publication_year":2016,"publication_date":"2016-05-05","ids":{"openalex":"https://openalex.org/W2346016685","doi":"https://doi.org/10.1093/nar/gkw381","mag":"2346016685","pmid":"https://pubmed.ncbi.nlm.nih.gov/27150812"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkw381","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw381","pdf_url":"https://academic.oup.com/nar/article-pdf/44/W1/W284/18788162/gkw381.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/44/W1/W284/18788162/gkw381.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5024514490","display_name":"Ji\u0159\u00ed \u010cern\u00fd","orcid":"https://orcid.org/0000-0002-1969-9304"},"institutions":[{"id":"https://openalex.org/I4210099114","display_name":"Czech Academy of Sciences, Institute of Biotechnology","ror":"https://ror.org/00wzqmx94","country_code":"CZ","type":"facility","lineage":["https://openalex.org/I202391551","https://openalex.org/I4210099114"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Ji\u0159\u00ed \u010cern\u00fd","raw_affiliation_strings":["Institute of Biotechnology CAS, BIOCEV, Pr\u016fmyslov\u00e1 595, 252 50 Vestec, Prague West, Czech Republic","Institute of Biotechnology CAS, BIOCEV, Pr \u016fmyslov \u00e1 595, 252 50 Vestec, Prague West, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Institute of Biotechnology CAS, BIOCEV, Pr\u016fmyslov\u00e1 595, 252 50 Vestec, Prague West, Czech Republic","institution_ids":[]},{"raw_affiliation_string":"Institute of Biotechnology CAS, BIOCEV, Pr \u016fmyslov \u00e1 595, 252 50 Vestec, Prague West, Czech Republic","institution_ids":["https://openalex.org/I4210099114"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003117943","display_name":"Paul\u00edna Bo\u017e\u00edkov\u00e1","orcid":"https://orcid.org/0000-0002-6553-8421"},"institutions":[{"id":"https://openalex.org/I4210099114","display_name":"Czech Academy of Sciences, Institute of Biotechnology","ror":"https://ror.org/00wzqmx94","country_code":"CZ","type":"facility","lineage":["https://openalex.org/I202391551","https://openalex.org/I4210099114"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Paul\u00edna Bo\u017e\u00edkov\u00e1","raw_affiliation_strings":["Institute of Biotechnology CAS, BIOCEV, Pr\u016fmyslov\u00e1 595, 252 50 Vestec, Prague West, Czech Republic","Institute of Biotechnology CAS, BIOCEV, Pr \u016fmyslov \u00e1 595, 252 50 Vestec, Prague West, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Institute of Biotechnology CAS, BIOCEV, Pr\u016fmyslov\u00e1 595, 252 50 Vestec, Prague West, Czech Republic","institution_ids":[]},{"raw_affiliation_string":"Institute of Biotechnology CAS, BIOCEV, Pr \u016fmyslov \u00e1 595, 252 50 Vestec, Prague West, Czech Republic","institution_ids":["https://openalex.org/I4210099114"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5017944702","display_name":"Bohdan Schneider","orcid":"https://orcid.org/0000-0001-7855-3690"},"institutions":[{"id":"https://openalex.org/I4210099114","display_name":"Czech Academy of Sciences, Institute of Biotechnology","ror":"https://ror.org/00wzqmx94","country_code":"CZ","type":"facility","lineage":["https://openalex.org/I202391551","https://openalex.org/I4210099114"]}],"countries":["CZ"],"is_corresponding":true,"raw_author_name":"Bohdan Schneider","raw_affiliation_strings":["Institute of Biotechnology CAS, BIOCEV, Pr\u016fmyslov\u00e1 595, 252 50 Vestec, Prague West, Czech Republic bohdan.schneider@gmail.com","Institute of Biotechnology CAS, BIOCEV, Pr \u016fmyslov \u00e1 595, 252 50 Vestec, Prague West, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Institute of Biotechnology CAS, BIOCEV, Pr\u016fmyslov\u00e1 595, 252 50 Vestec, Prague West, Czech Republic bohdan.schneider@gmail.com","institution_ids":[]},{"raw_affiliation_string":"Institute of Biotechnology CAS, BIOCEV, Pr \u016fmyslov \u00e1 595, 252 50 Vestec, Prague West, Czech Republic","institution_ids":["https://openalex.org/I4210099114"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5017944702"],"corresponding_institution_ids":["https://openalex.org/I4210099114"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.5222,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.71209563,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"44","issue":"W1","first_page":"W284","last_page":"W287"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9994000196456909,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9994000196456909,"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":0.9977999925613403,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9736999869346619,"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/dna","display_name":"DNA","score":0.6486039161682129},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6356313228607178},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.534473717212677},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4997844696044922},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4525354504585266},{"id":"https://openalex.org/keywords/table","display_name":"Table (database)","score":0.41440489888191223},{"id":"https://openalex.org/keywords/login","display_name":"Login","score":0.4108181595802307},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.36355510354042053},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.34678906202316284},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3238445818424225},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2955927848815918},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.2581639587879181},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.23077517747879028},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.10285818576812744}],"concepts":[{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.6486039161682129},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6356313228607178},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.534473717212677},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4997844696044922},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4525354504585266},{"id":"https://openalex.org/C45235069","wikidata":"https://www.wikidata.org/wiki/Q278425","display_name":"Table (database)","level":2,"score":0.41440489888191223},{"id":"https://openalex.org/C113324615","wikidata":"https://www.wikidata.org/wiki/Q472302","display_name":"Login","level":2,"score":0.4108181595802307},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.36355510354042053},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.34678906202316284},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3238445818424225},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2955927848815918},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2581639587879181},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.23077517747879028},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.10285818576812744}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkw381","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw381","pdf_url":"https://academic.oup.com/nar/article-pdf/44/W1/W284/18788162/gkw381.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:27150812","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27150812","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,"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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:europepmc.org:3952906","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4987927","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:nar:44/W1/W284","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/44/W1/W284","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"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"}],"best_oa_location":{"id":"doi:10.1093/nar/gkw381","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw381","pdf_url":"https://academic.oup.com/nar/article-pdf/44/W1/W284/18788162/gkw381.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.6399999856948853}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2346016685.pdf","grobid_xml":"https://content.openalex.org/works/W2346016685.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W13939922","https://openalex.org/W280694366","https://openalex.org/W1984882637","https://openalex.org/W2011703027","https://openalex.org/W2029667189","https://openalex.org/W2043995349","https://openalex.org/W2074718022","https://openalex.org/W2135542964","https://openalex.org/W2146180772","https://openalex.org/W3021299718"],"related_works":["https://openalex.org/W4256170434","https://openalex.org/W4235220108","https://openalex.org/W4315650027","https://openalex.org/W4238894392","https://openalex.org/W2357607877","https://openalex.org/W4230461295","https://openalex.org/W4235839583","https://openalex.org/W4311722428","https://openalex.org/W4252054168","https://openalex.org/W4244062111"],"abstract_inverted_index":{"The":[0,48,73,106],"web":[1],"service":[2],"DNATCO":[3,22],"(dnatco.org)":[4],"classifies":[5],"local":[6],"conformations":[7],"of":[8,65,83,89,96],"DNA":[9,20,57,70],"molecules":[10],"beyond":[11],"their":[12],"traditional":[13],"sorting":[14],"to":[15,26,34,62,112],"A,":[16],"B":[17],"and":[18,87,92,110,115],"Z":[19],"forms.":[21],"provides":[23],"an":[24],"interface":[25],"robust":[27],"algorithms":[28],"assigning":[29],"conformation":[30],"classes":[31,52],"called":[32],"NTC:":[33,51],"dinucleotides":[35],"extracted":[36],"from":[37],"DNA-containing":[38],"structures":[39],"uploaded":[40],"in":[41,80,93],"PDB":[42],"format":[43],"version":[44],"3.1":[45],"or":[46],"above.":[47],"assigned":[49],"dinucleotide":[50],"are":[53,75],"further":[54,103],"grouped":[55],"into":[56],"structural":[58,71],"alphabet":[59],"NTA:":[60],",":[61],"the":[63,68,81,90,94],"best":[64],"our":[66],"knowledge":[67],"first":[69],"alphabet.":[72],"results":[74],"presented":[76],"at":[77],"two":[78],"levels:":[79],"form":[82,95],"user":[84],"friendly":[85],"visualization":[86],"analysis":[88,104],"assignment,":[91],"a":[97],"downloadable,":[98],"more":[99],"detailed":[100],"table":[101],"for":[102],"offline.":[105],"website":[107],"is":[108,117],"free":[109],"open":[111],"all":[113],"users":[114],"there":[116],"no":[118],"login":[119],"requirement.":[120]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":5},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
