{"id":"https://openalex.org/W2121104379","doi":"https://doi.org/10.1093/bioinformatics/btq321","title":"Assemble: an interactive graphical tool to analyze and build RNA architectures at the 2D and 3D levels","display_name":"Assemble: an interactive graphical tool to analyze and build RNA architectures at the 2D and 3D levels","publication_year":2010,"publication_date":"2010-06-18","ids":{"openalex":"https://openalex.org/W2121104379","doi":"https://doi.org/10.1093/bioinformatics/btq321","mag":"2121104379","pmid":"https://pubmed.ncbi.nlm.nih.gov/20562414"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq321","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq321","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/16/2057/48855360/bioinformatics_26_16_2057.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/26/16/2057/48855360/bioinformatics_26_16_2057.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5063292286","display_name":"Fabrice Jossinet","orcid":"https://orcid.org/0000-0003-4384-5735"},"institutions":[{"id":"https://openalex.org/I68947357","display_name":"Universit\u00e9 de Strasbourg","ror":"https://ror.org/00pg6eq24","country_code":"FR","type":"education","lineage":["https://openalex.org/I68947357"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210128885","display_name":"Architecture et R\u00e9activit\u00e9 de l'arN","ror":"https://ror.org/03xmjtz19","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210128885","https://openalex.org/I68947357"]},{"id":"https://openalex.org/I4210158086","display_name":"Institut de Biologie Mol\u00e9culaire et Cellulaire","ror":"https://ror.org/05qpmg879","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210158086","https://openalex.org/I68947357"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Fabrice Jossinet","raw_affiliation_strings":["Architecture et R\u00e9activit\u00e9 de l'ARN, Universit\u00e9 de Strasbourg, Institut de Biologie Mol\u00e9culaire et Cellulaire du CNRS, F-67084 Strasbourg, France"],"affiliations":[{"raw_affiliation_string":"Architecture et R\u00e9activit\u00e9 de l'ARN, Universit\u00e9 de Strasbourg, Institut de Biologie Mol\u00e9culaire et Cellulaire du CNRS, F-67084 Strasbourg, France","institution_ids":["https://openalex.org/I4210128885","https://openalex.org/I4210158086","https://openalex.org/I68947357","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077731724","display_name":"Thomas Ludwig","orcid":"https://orcid.org/0000-0002-9996-1084"},"institutions":[{"id":"https://openalex.org/I4210128885","display_name":"Architecture et R\u00e9activit\u00e9 de l'arN","ror":"https://ror.org/03xmjtz19","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210128885","https://openalex.org/I68947357"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I68947357","display_name":"Universit\u00e9 de Strasbourg","ror":"https://ror.org/00pg6eq24","country_code":"FR","type":"education","lineage":["https://openalex.org/I68947357"]},{"id":"https://openalex.org/I4210158086","display_name":"Institut de Biologie Mol\u00e9culaire et Cellulaire","ror":"https://ror.org/05qpmg879","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210158086","https://openalex.org/I68947357"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Thomas E. Ludwig","raw_affiliation_strings":["Architecture et R\u00e9activit\u00e9 de l'ARN, Universit\u00e9 de Strasbourg, Institut de Biologie Mol\u00e9culaire et Cellulaire du CNRS, F-67084 Strasbourg, France"],"affiliations":[{"raw_affiliation_string":"Architecture et R\u00e9activit\u00e9 de l'ARN, Universit\u00e9 de Strasbourg, Institut de Biologie Mol\u00e9culaire et Cellulaire du CNRS, F-67084 Strasbourg, France","institution_ids":["https://openalex.org/I4210128885","https://openalex.org/I4210158086","https://openalex.org/I68947357","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5018416560","display_name":"\u00c9ric Westhof","orcid":"https://orcid.org/0000-0002-6172-5422"},"institutions":[{"id":"https://openalex.org/I4210128885","display_name":"Architecture et R\u00e9activit\u00e9 de l'arN","ror":"https://ror.org/03xmjtz19","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210128885","https://openalex.org/I68947357"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210158086","display_name":"Institut de Biologie Mol\u00e9culaire et Cellulaire","ror":"https://ror.org/05qpmg879","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210158086","https://openalex.org/I68947357"]},{"id":"https://openalex.org/I68947357","display_name":"Universit\u00e9 de Strasbourg","ror":"https://ror.org/00pg6eq24","country_code":"FR","type":"education","lineage":["https://openalex.org/I68947357"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Eric Westhof","raw_affiliation_strings":["Architecture et R\u00e9activit\u00e9 de l'ARN, Universit\u00e9 de Strasbourg, Institut de Biologie Mol\u00e9culaire et Cellulaire du CNRS, F-67084 Strasbourg, France"],"affiliations":[{"raw_affiliation_string":"Architecture et R\u00e9activit\u00e9 de l'ARN, Universit\u00e9 de Strasbourg, Institut de Biologie Mol\u00e9culaire et Cellulaire du CNRS, F-67084 Strasbourg, France","institution_ids":["https://openalex.org/I4210128885","https://openalex.org/I4210158086","https://openalex.org/I68947357","https://openalex.org/I1294671590"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5063292286"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210128885","https://openalex.org/I4210158086","https://openalex.org/I68947357"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":7.3192,"has_fulltext":false,"cited_by_count":189,"citation_normalized_percentile":{"value":0.97996214,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"26","issue":"16","first_page":"2057","last_page":"2059"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","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/T10521","display_name":"RNA and protein synthesis mechanisms","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/T11482","display_name":"RNA modifications and cancer","score":0.9991000294685364,"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/T10604","display_name":"RNA Research and Splicing","score":0.9973999857902527,"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/computer-science","display_name":"Computer science","score":0.8096277713775635},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.7216384410858154},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.6993576288223267},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.6944922804832458},{"id":"https://openalex.org/keywords/license","display_name":"License","score":0.5279430747032166},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.5268462896347046},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5184330940246582},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.46982359886169434},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.3795933127403259},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.37687528133392334}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8096277713775635},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.7216384410858154},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.6993576288223267},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.6944922804832458},{"id":"https://openalex.org/C2780560020","wikidata":"https://www.wikidata.org/wiki/Q79719","display_name":"License","level":2,"score":0.5279430747032166},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.5268462896347046},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5184330940246582},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.46982359886169434},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.3795933127403259},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.37687528133392334},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","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":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","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":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btq321","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq321","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/16/2057/48855360/bioinformatics_26_16_2057.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20562414","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20562414","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:HAL:hal-00529831v1","is_oa":false,"landing_page_url":"https://hal.science/hal-00529831","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2010, 26 (16), pp.2057-9. &#x27E8;10.1093/bioinformatics/btq321&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:pubmedcentral.nih.gov:2916716","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2916716","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btq321","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq321","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/16/2057/48855360/bioinformatics_26_16_2057.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.44999998807907104,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2121104379.pdf","grobid_xml":"https://content.openalex.org/works/W2121104379.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1964716020","https://openalex.org/W1969758655","https://openalex.org/W1988409793","https://openalex.org/W1994830628","https://openalex.org/W2034760423","https://openalex.org/W2059099058","https://openalex.org/W2091705944","https://openalex.org/W2102017611","https://openalex.org/W2103250001","https://openalex.org/W2106478835","https://openalex.org/W2107334084","https://openalex.org/W2109184486","https://openalex.org/W2130479394","https://openalex.org/W2135300233","https://openalex.org/W2147231162","https://openalex.org/W4233379990"],"related_works":["https://openalex.org/W2036021480","https://openalex.org/W2546377002","https://openalex.org/W4285209474","https://openalex.org/W2046541848","https://openalex.org/W22571951","https://openalex.org/W4384009753","https://openalex.org/W2791776396","https://openalex.org/W4286531993","https://openalex.org/W2098339479","https://openalex.org/W3214341251"],"abstract_inverted_index":{"Assemble":[0],"is":[1,10,16],"released":[2],"under":[3],"an":[4],"open-source":[5],"license":[6],"(MIT":[7],"license)":[8],"and":[9,22,27],"freely":[11],"available":[12],"at":[13],"http://bioinformatics.org/assemble.":[14],"It":[15],"implemented":[17],"in":[18],"the":[19],"Java":[20],"language":[21],"runs":[23],"on":[24],"MacOSX,":[25],"Linux":[26],"Windows":[28],"operating":[29],"systems.":[30]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":12},{"year":2020,"cited_by_count":13},{"year":2019,"cited_by_count":10},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":17},{"year":2016,"cited_by_count":11},{"year":2015,"cited_by_count":19},{"year":2014,"cited_by_count":16},{"year":2013,"cited_by_count":20},{"year":2012,"cited_by_count":20}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
