{"id":"https://openalex.org/W2576482730","doi":"https://doi.org/10.1007/s10822-016-0007-0","title":"RNAHelix: computational modeling of nucleic acid structures with Watson\u2013Crick and non-canonical base pairs","display_name":"RNAHelix: computational modeling of nucleic acid structures with Watson\u2013Crick and non-canonical base pairs","publication_year":2017,"publication_date":"2017-01-19","ids":{"openalex":"https://openalex.org/W2576482730","doi":"https://doi.org/10.1007/s10822-016-0007-0","mag":"2576482730","pmid":"https://pubmed.ncbi.nlm.nih.gov/28102461"},"language":"en","primary_location":{"id":"doi:10.1007/s10822-016-0007-0","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s10822-016-0007-0","pdf_url":null,"source":{"id":"https://openalex.org/S64621741","display_name":"Journal of Computer-Aided Molecular Design","issn_l":"0920-654X","issn":["0920-654X","1573-4951"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Computer-Aided Molecular Design","raw_type":"journal-article"},"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/A5051389777","display_name":"Dhananjay Bhattacharyya","orcid":"https://orcid.org/0000-0001-9227-6490"},"institutions":[{"id":"https://openalex.org/I16019930","display_name":"Saha Institute of Nuclear Physics","ror":"https://ror.org/0491yz035","country_code":"IN","type":"facility","lineage":["https://openalex.org/I16019930"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Dhananjay Bhattacharyya","raw_affiliation_strings":["Computational Science Division, Saha Institute of Nuclear Physics, 1/AF Bidhannagar, Kolkata, 700064, India. dhananjay.bhattacharyya@saha.ac.in","Computational Science Division, Saha Institute of Nuclear Physics, 1/AF Bidhannagar, Kolkata, 700064, India"],"affiliations":[{"raw_affiliation_string":"Computational Science Division, Saha Institute of Nuclear Physics, 1/AF Bidhannagar, Kolkata, 700064, India. dhananjay.bhattacharyya@saha.ac.in","institution_ids":["https://openalex.org/I16019930"]},{"raw_affiliation_string":"Computational Science Division, Saha Institute of Nuclear Physics, 1/AF Bidhannagar, Kolkata, 700064, India","institution_ids":["https://openalex.org/I16019930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012318444","display_name":"Sukanya Halder","orcid":null},"institutions":[{"id":"https://openalex.org/I16019930","display_name":"Saha Institute of Nuclear Physics","ror":"https://ror.org/0491yz035","country_code":"IN","type":"facility","lineage":["https://openalex.org/I16019930"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Sukanya Halder","raw_affiliation_strings":["Computational Science Division, Saha Institute of Nuclear Physics, 1/AF Bidhannagar, Kolkata, 700064, India"],"affiliations":[{"raw_affiliation_string":"Computational Science Division, Saha Institute of Nuclear Physics, 1/AF Bidhannagar, Kolkata, 700064, India","institution_ids":["https://openalex.org/I16019930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054921936","display_name":"Sankar Basu","orcid":"https://orcid.org/0000-0003-1393-1982"},"institutions":[{"id":"https://openalex.org/I102134673","display_name":"Link\u00f6ping University","ror":"https://ror.org/05ynxx418","country_code":"SE","type":"education","lineage":["https://openalex.org/I102134673"]},{"id":"https://openalex.org/I106542073","display_name":"University of Calcutta","ror":"https://ror.org/01e7v7w47","country_code":"IN","type":"education","lineage":["https://openalex.org/I106542073"]}],"countries":["IN","SE"],"is_corresponding":false,"raw_author_name":"Sankar Basu","raw_affiliation_strings":["Computational Biophysics, IFM, Bioinformatics Division, University of Linkoping, 581 83, Link\u00f6ping, Sweden","Department of Biochemistry, University of Calcutta, Kolkata, 700019, India"],"affiliations":[{"raw_affiliation_string":"Computational Biophysics, IFM, Bioinformatics Division, University of Linkoping, 581 83, Link\u00f6ping, Sweden","institution_ids":["https://openalex.org/I102134673"]},{"raw_affiliation_string":"Department of Biochemistry, University of Calcutta, Kolkata, 700019, India","institution_ids":["https://openalex.org/I106542073"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062127191","display_name":"Debasish Mukherjee","orcid":"https://orcid.org/0000-0002-0158-0700"},"institutions":[{"id":"https://openalex.org/I16019930","display_name":"Saha Institute of Nuclear Physics","ror":"https://ror.org/0491yz035","country_code":"IN","type":"facility","lineage":["https://openalex.org/I16019930"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Debasish Mukherjee","raw_affiliation_strings":["Computational Science Division, Saha Institute of Nuclear Physics, 1/AF Bidhannagar, Kolkata, 700064, India"],"affiliations":[{"raw_affiliation_string":"Computational Science Division, Saha Institute of Nuclear Physics, 1/AF Bidhannagar, Kolkata, 700064, India","institution_ids":["https://openalex.org/I16019930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054354515","display_name":"Prasun Kumar","orcid":"https://orcid.org/0000-0002-2008-3347"},"institutions":[{"id":"https://openalex.org/I59270414","display_name":"Indian Institute of Science Bangalore","ror":"https://ror.org/04dese585","country_code":"IN","type":"education","lineage":["https://openalex.org/I59270414"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Prasun Kumar","raw_affiliation_strings":["Molecular Biophysics Unit, Indian Institute of Science, Bangalore, 560012, India"],"affiliations":[{"raw_affiliation_string":"Molecular Biophysics Unit, Indian Institute of Science, Bangalore, 560012, India","institution_ids":["https://openalex.org/I59270414"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013819419","display_name":"Manju Bansal","orcid":"https://orcid.org/0000-0003-4218-0559"},"institutions":[{"id":"https://openalex.org/I59270414","display_name":"Indian Institute of Science Bangalore","ror":"https://ror.org/04dese585","country_code":"IN","type":"education","lineage":["https://openalex.org/I59270414"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Manju Bansal","raw_affiliation_strings":["Molecular Biophysics Unit, Indian Institute of Science, Bangalore, 560012, India. mb@mbu.iisc.ernet.in","Molecular Biophysics Unit, Indian Institute of Science, Bangalore, 560012, India"],"affiliations":[{"raw_affiliation_string":"Molecular Biophysics Unit, Indian Institute of Science, Bangalore, 560012, India. mb@mbu.iisc.ernet.in","institution_ids":["https://openalex.org/I59270414"]},{"raw_affiliation_string":"Molecular Biophysics Unit, Indian Institute of Science, Bangalore, 560012, India","institution_ids":["https://openalex.org/I59270414"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5051389777"],"corresponding_institution_ids":["https://openalex.org/I16019930"],"apc_list":{"value":2890,"currency":"EUR","value_usd":3690},"apc_paid":null,"fwci":0.898,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.72680493,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"31","issue":"2","first_page":"219","last_page":"235"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9994000196456909,"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.9836999773979187,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/base-pair","display_name":"Base pair","score":0.7280940413475037},{"id":"https://openalex.org/keywords/molecular-structure-of-nucleic-acids-a-structure-for-deoxyribose-nucleic-acid","display_name":"Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid","score":0.7197538614273071},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.48640134930610657},{"id":"https://openalex.org/keywords/nucleic-acid","display_name":"Nucleic acid","score":0.48175621032714844},{"id":"https://openalex.org/keywords/structural-motif","display_name":"Structural motif","score":0.42178231477737427},{"id":"https://openalex.org/keywords/torsion","display_name":"Torsion (gastropod)","score":0.413921058177948},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.4017810821533203},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.33792564272880554},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.33075445890426636},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.328609824180603},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20051303505897522},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19212603569030762}],"concepts":[{"id":"https://openalex.org/C185581394","wikidata":"https://www.wikidata.org/wiki/Q145911","display_name":"Base pair","level":3,"score":0.7280940413475037},{"id":"https://openalex.org/C84403525","wikidata":"https://www.wikidata.org/wiki/Q1895685","display_name":"Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid","level":4,"score":0.7197538614273071},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.48640134930610657},{"id":"https://openalex.org/C24107716","wikidata":"https://www.wikidata.org/wiki/Q123619","display_name":"Nucleic acid","level":2,"score":0.48175621032714844},{"id":"https://openalex.org/C132677234","wikidata":"https://www.wikidata.org/wiki/Q3273544","display_name":"Structural motif","level":2,"score":0.42178231477737427},{"id":"https://openalex.org/C77461463","wikidata":"https://www.wikidata.org/wiki/Q7827201","display_name":"Torsion (gastropod)","level":2,"score":0.413921058177948},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.4017810821533203},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.33792564272880554},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.33075445890426636},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.328609824180603},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20051303505897522},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19212603569030762},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C90856448","wikidata":"https://www.wikidata.org/wiki/Q431","display_name":"Zoology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","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":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D009696","descriptor_name":"Nucleic Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009696","descriptor_name":"Nucleic Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009696","descriptor_name":"Nucleic Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020029","descriptor_name":"Base Pairing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020029","descriptor_name":"Base Pairing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020029","descriptor_name":"Base Pairing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055672","descriptor_name":"Static Electricity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055672","descriptor_name":"Static Electricity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055672","descriptor_name":"Static Electricity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1007/s10822-016-0007-0","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s10822-016-0007-0","pdf_url":null,"source":{"id":"https://openalex.org/S64621741","display_name":"Journal of Computer-Aided Molecular Design","issn_l":"0920-654X","issn":["0920-654X","1573-4951"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Computer-Aided Molecular Design","raw_type":"journal-article"},{"id":"pmid:28102461","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28102461","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":"Journal of computer-aided molecular design","raw_type":null},{"id":"pmh:oai:eprints.iisc.ac.in:56608","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4377196309","display_name":"NOT FOUND REPOSITORY (Indian Institute of Science Bangalore)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I59270414","host_organization_name":"Indian Institute of Science Bangalore","host_organization_lineage":["https://openalex.org/I59270414"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/2","display_name":"Zero hunger","score":0.47999998927116394}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":56,"referenced_works":["https://openalex.org/W142718297","https://openalex.org/W160347429","https://openalex.org/W1584476217","https://openalex.org/W1597842671","https://openalex.org/W1980722147","https://openalex.org/W1988409793","https://openalex.org/W1990356245","https://openalex.org/W2007258535","https://openalex.org/W2012681128","https://openalex.org/W2018559377","https://openalex.org/W2018761712","https://openalex.org/W2022383289","https://openalex.org/W2022945550","https://openalex.org/W2024015808","https://openalex.org/W2043927214","https://openalex.org/W2047313152","https://openalex.org/W2052083266","https://openalex.org/W2053561906","https://openalex.org/W2055317682","https://openalex.org/W2055546727","https://openalex.org/W2062516618","https://openalex.org/W2064407584","https://openalex.org/W2072112159","https://openalex.org/W2072737163","https://openalex.org/W2074718022","https://openalex.org/W2077064224","https://openalex.org/W2082217157","https://openalex.org/W2082589966","https://openalex.org/W2082882553","https://openalex.org/W2085582949","https://openalex.org/W2090196960","https://openalex.org/W2096328683","https://openalex.org/W2099001053","https://openalex.org/W2100158915","https://openalex.org/W2100380699","https://openalex.org/W2106478835","https://openalex.org/W2107533804","https://openalex.org/W2110562802","https://openalex.org/W2122199548","https://openalex.org/W2127382372","https://openalex.org/W2130479394","https://openalex.org/W2131178902","https://openalex.org/W2132213868","https://openalex.org/W2132262459","https://openalex.org/W2132629607","https://openalex.org/W2139544554","https://openalex.org/W2150404344","https://openalex.org/W2150945052","https://openalex.org/W2151553287","https://openalex.org/W2155338010","https://openalex.org/W2156909690","https://openalex.org/W2162548786","https://openalex.org/W2180866151","https://openalex.org/W2319770548","https://openalex.org/W2331201449","https://openalex.org/W2334105408"],"related_works":["https://openalex.org/W2132892550","https://openalex.org/W2022802382","https://openalex.org/W3166783688","https://openalex.org/W2937614422","https://openalex.org/W3194965243","https://openalex.org/W2956465205","https://openalex.org/W3201324939","https://openalex.org/W108180338","https://openalex.org/W1502092793","https://openalex.org/W2050767395"],"abstract_inverted_index":null,"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
