{"id":"https://openalex.org/W3014689390","doi":"https://doi.org/10.1109/tcbb.2020.2983922","title":"RSwitch: A Novel Bioinformatics Database on Riboswitches as Antibacterial Drug Targets","display_name":"RSwitch: A Novel Bioinformatics Database on Riboswitches as Antibacterial Drug Targets","publication_year":2020,"publication_date":"2020-03-30","ids":{"openalex":"https://openalex.org/W3014689390","doi":"https://doi.org/10.1109/tcbb.2020.2983922","mag":"3014689390","pmid":"https://pubmed.ncbi.nlm.nih.gov/32248122"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2020.2983922","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2020.2983922","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"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/ACM Transactions on Computational Biology and Bioinformatics","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/A5008605394","display_name":"Robert Penchovsky","orcid":"https://orcid.org/0000-0001-9502-3421"},"institutions":[{"id":"https://openalex.org/I58918642","display_name":"Sofia University \"St. Kliment Ohridski\"","ror":"https://ror.org/02jv3k292","country_code":"BG","type":"education","lineage":["https://openalex.org/I58918642"]}],"countries":["BG"],"is_corresponding":true,"raw_author_name":"Robert Penchovsky","raw_affiliation_strings":["Faculty of Biology, Sofia, Bulgaria"],"affiliations":[{"raw_affiliation_string":"Faculty of Biology, Sofia, Bulgaria","institution_ids":["https://openalex.org/I58918642"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005729986","display_name":"Nikolet Pavlova","orcid":"https://orcid.org/0000-0002-5405-9089"},"institutions":[{"id":"https://openalex.org/I58918642","display_name":"Sofia University \"St. Kliment Ohridski\"","ror":"https://ror.org/02jv3k292","country_code":"BG","type":"education","lineage":["https://openalex.org/I58918642"]}],"countries":["BG"],"is_corresponding":false,"raw_author_name":"Nikolet Pavlova","raw_affiliation_strings":["Faculty of Biology, Sofia, Bulgaria"],"affiliations":[{"raw_affiliation_string":"Faculty of Biology, Sofia, Bulgaria","institution_ids":["https://openalex.org/I58918642"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068980386","display_name":"Dimitrios Kaloudas","orcid":"https://orcid.org/0000-0003-2789-3606"},"institutions":[{"id":"https://openalex.org/I58918642","display_name":"Sofia University \"St. Kliment Ohridski\"","ror":"https://ror.org/02jv3k292","country_code":"BG","type":"education","lineage":["https://openalex.org/I58918642"]}],"countries":["BG"],"is_corresponding":false,"raw_author_name":"Dimitrios Kaloudas","raw_affiliation_strings":["Faculty of Biology, Sofia, Bulgaria"],"affiliations":[{"raw_affiliation_string":"Faculty of Biology, Sofia, Bulgaria","institution_ids":["https://openalex.org/I58918642"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5008605394"],"corresponding_institution_ids":["https://openalex.org/I58918642"],"apc_list":null,"apc_paid":null,"fwci":0.918,"has_fulltext":false,"cited_by_count":19,"citation_normalized_percentile":{"value":0.7269429,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"18","issue":"2","first_page":"804","last_page":"808"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9998999834060669,"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":0.9998999834060669,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9846000075340271,"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/T12477","display_name":"Toxin Mechanisms and Immunotoxins","score":0.9835000038146973,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.501272439956665},{"id":"https://openalex.org/keywords/riboswitch","display_name":"Riboswitch","score":0.46083125472068787},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.45313045382499695},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.387321412563324},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3611370027065277},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27387377619743347},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.09803837537765503},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"Non-coding RNA","score":0.07815805077552795},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.06992295384407043}],"concepts":[{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.501272439956665},{"id":"https://openalex.org/C148625055","wikidata":"https://www.wikidata.org/wiki/Q418840","display_name":"Riboswitch","level":5,"score":0.46083125472068787},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.45313045382499695},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.387321412563324},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3611370027065277},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27387377619743347},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09803837537765503},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.07815805077552795},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.06992295384407043},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001424","descriptor_name":"Bacterial Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D001424","descriptor_name":"Bacterial Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D001424","descriptor_name":"Bacterial Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2020.2983922","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2020.2983922","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"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/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32248122","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32248122","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Affordable and clean energy","id":"https://metadata.un.org/sdg/7","score":0.6499999761581421}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321843","display_name":"Bulgarian National Science Fund","ror":"https://ror.org/05eg49r29"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":18,"referenced_works":["https://openalex.org/W1483247593","https://openalex.org/W1978173716","https://openalex.org/W1998215345","https://openalex.org/W2053009004","https://openalex.org/W2086561953","https://openalex.org/W2129213376","https://openalex.org/W2140813813","https://openalex.org/W2154241726","https://openalex.org/W2158381555","https://openalex.org/W2168974130","https://openalex.org/W2766848373","https://openalex.org/W2792500561","https://openalex.org/W2944558010","https://openalex.org/W2946119588","https://openalex.org/W3037699253","https://openalex.org/W6629003624","https://openalex.org/W6780578792","https://openalex.org/W6807695228"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W1507571087","https://openalex.org/W2756374846","https://openalex.org/W2083416401","https://openalex.org/W1982316634","https://openalex.org/W2769114003","https://openalex.org/W2150147498","https://openalex.org/W21023364","https://openalex.org/W2009055497"],"abstract_inverted_index":{"The":[0,29,51,78,121,154],"RSwitch":[1,30,155],"is":[2,157],"a":[3,8,26],"MySQL":[4],"database":[5,31,79,105,122,156,166],"implemented":[6],"on":[7,94,98],"PHP-based":[9],"server,":[10],"which":[11,129],"also":[12,123],"provides":[13,80,124,167],"various":[14],"useful":[15],"tools":[16],"for":[17,114,148,168,175],"analyses":[18],"of":[19,37,75,90,117,151,179],"DNA,":[20],"RNA,":[21],"and":[22,35,72,97,110,145],"protein":[23],"sequences":[24],"applying":[25],"user-friendly":[27],"interface.":[28],"currently":[32],"contains":[33],"information":[34,81,173],"annotations":[36],"215":[38],"bacterial":[39,76,143],"riboswitches":[40,131,182],"from":[41],"16":[42],"different":[43],"types":[44],"found":[45],"in":[46,128],"50":[47],"human":[48],"pathogenic":[49],"bacteria.":[50],"riboswitch":[52,84],"classes":[53],"include":[54],"those":[55],"sensing":[56],"FMN,":[57],"glmS,":[58],"Cobalamin,":[59],"Lysine,":[60],"SAH,":[61],"SAM,":[62],"Purine,":[63],"TPP,":[64],"c-di-GMPI,":[65],"c-di-GMPII,":[66],"Moco,":[67],"PreQ1,":[68],"Fluoride,":[69],"Glycine,":[70],"Mg<sup>2+</sup>,":[71],"Mn<sup>2+</sup>":[73],"type":[74,150],"riboswitches.":[77],"about":[82],"the":[83,87,91,104,107,111,118,125,130,152,169,177,180],"aptamer":[85,119],"sequences,":[86],"thermodynamic":[88],"ensemble":[89],"RNA":[92],"structures":[93],"partition":[95],"function":[96],"free":[99],"minimum":[100],"energy":[101],"function.":[102],"Additionally,":[103],"presents":[106],"centroid":[108],"structure":[109],"positional":[112],"entropy":[113],"each":[115,149],"position":[116],"sequences.":[120],"biochemical":[126],"pathways":[127],"are":[132],"involved":[133],"in,":[134],"as":[135,137,183],"well":[136],"multiple":[138],"sequence":[139],"alignments,":[140],"multi-drug":[141],"resistance":[142],"strains":[144],"consensus":[146],"motifs":[147],"switches.":[153],"permanently":[158],"available":[159],"online":[160],"without":[161],"any":[162],"restrictions.":[163],"This":[164],"bioinformatics":[165],"first":[170],"time":[171],"all":[172],"needed":[174],"assessing":[176],"suitability":[178],"presented":[181],"antibacterial":[184],"drug":[185],"targets.":[186]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-03-27T14:29:43.386196","created_date":"2025-10-10T00:00:00"}
