{"id":"https://openalex.org/W4365136164","doi":"https://doi.org/10.1093/bioinformatics/btad172","title":"sInterBase: a comprehensive database of <i>Escherichia coli</i> sRNA\u2013mRNA interactions","display_name":"sInterBase: a comprehensive database of <i>Escherichia coli</i> sRNA\u2013mRNA interactions","publication_year":2023,"publication_date":"2023-04-01","ids":{"openalex":"https://openalex.org/W4365136164","doi":"https://doi.org/10.1093/bioinformatics/btad172","pmid":"https://pubmed.ncbi.nlm.nih.gov/37042720"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btad172","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad172","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad172/49864568/btad172.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad172/49864568/btad172.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006259117","display_name":"Shani Cohen","orcid":"https://orcid.org/0009-0008-4606-4575"},"institutions":[{"id":"https://openalex.org/I124227911","display_name":"Ben-Gurion University of the Negev","ror":"https://ror.org/05tkyf982","country_code":"IL","type":"education","lineage":["https://openalex.org/I124227911"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Shani Cohen","raw_affiliation_strings":["Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel","institution_ids":["https://openalex.org/I124227911"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089631123","display_name":"Eden Maximof","orcid":null},"institutions":[{"id":"https://openalex.org/I124227911","display_name":"Ben-Gurion University of the Negev","ror":"https://ror.org/05tkyf982","country_code":"IL","type":"education","lineage":["https://openalex.org/I124227911"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Eden Maximof","raw_affiliation_strings":["Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel","institution_ids":["https://openalex.org/I124227911"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030658613","display_name":"Shay Rokach","orcid":null},"institutions":[{"id":"https://openalex.org/I124227911","display_name":"Ben-Gurion University of the Negev","ror":"https://ror.org/05tkyf982","country_code":"IL","type":"education","lineage":["https://openalex.org/I124227911"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Shay Rokach","raw_affiliation_strings":["Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel","institution_ids":["https://openalex.org/I124227911"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003118949","display_name":"Mor Tadeski","orcid":null},"institutions":[{"id":"https://openalex.org/I124227911","display_name":"Ben-Gurion University of the Negev","ror":"https://ror.org/05tkyf982","country_code":"IL","type":"education","lineage":["https://openalex.org/I124227911"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Mor Tadeski","raw_affiliation_strings":["Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel","institution_ids":["https://openalex.org/I124227911"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5062614879","display_name":"Isana Veksler\u2010Lublinsky","orcid":"https://orcid.org/0000-0002-4251-6158"},"institutions":[{"id":"https://openalex.org/I124227911","display_name":"Ben-Gurion University of the Negev","ror":"https://ror.org/05tkyf982","country_code":"IL","type":"education","lineage":["https://openalex.org/I124227911"]}],"countries":["IL"],"is_corresponding":true,"raw_author_name":"Isana Veksler-Lublinsky","raw_affiliation_strings":["Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel"],"raw_orcid":"https://orcid.org/0000-0002-4251-6158","affiliations":[{"raw_affiliation_string":"Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1 , Beer-Sheva 8410501, Israel","institution_ids":["https://openalex.org/I124227911"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5062614879"],"corresponding_institution_ids":["https://openalex.org/I124227911"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.9418,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.74805966,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"39","issue":"4","first_page":null,"last_page":null},"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.9984999895095825,"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"}},{"id":"https://openalex.org/T11482","display_name":"RNA modifications and cancer","score":0.9969000220298767,"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/escherichia-coli","display_name":"Escherichia coli","score":0.7297031879425049},{"id":"https://openalex.org/keywords/transfer-rna","display_name":"Transfer RNA","score":0.6909925937652588},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.5398733615875244},{"id":"https://openalex.org/keywords/messenger-rna","display_name":"Messenger RNA","score":0.45220518112182617},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.44234949350357056},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4297920763492584},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.33267974853515625},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2636614441871643},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.24744823575019836},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.17281994223594666}],"concepts":[{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.7297031879425049},{"id":"https://openalex.org/C153957851","wikidata":"https://www.wikidata.org/wiki/Q201448","display_name":"Transfer RNA","level":4,"score":0.6909925937652588},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.5398733615875244},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.45220518112182617},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44234949350357056},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4297920763492584},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.33267974853515625},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2636614441871643},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.24744823575019836},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.17281994223594666}],"mesh":[{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","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":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btad172","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad172","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad172/49864568/btad172.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37042720","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37042720","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:pubmedcentral.nih.gov:10121333","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10121333","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10121333/pdf/btad172.pdf","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btad172","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad172","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad172/49864568/btad172.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6642500008","display_name":null,"funder_award_id":"520/20","funder_id":"https://openalex.org/F4320322252","funder_display_name":"Israel Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320322252","display_name":"Israel Science Foundation","ror":"https://ror.org/04sazxf24"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4365136164.pdf"},"referenced_works_count":19,"referenced_works":["https://openalex.org/W1534710388","https://openalex.org/W1822577623","https://openalex.org/W2046374424","https://openalex.org/W2091356219","https://openalex.org/W2119340328","https://openalex.org/W2131567601","https://openalex.org/W2132304324","https://openalex.org/W2150882562","https://openalex.org/W2397790962","https://openalex.org/W2516278741","https://openalex.org/W2565865891","https://openalex.org/W2620157428","https://openalex.org/W2971833257","https://openalex.org/W2994808779","https://openalex.org/W3013139771","https://openalex.org/W3023974221","https://openalex.org/W3132250380","https://openalex.org/W3164701596","https://openalex.org/W3185730212"],"related_works":["https://openalex.org/W2360987025","https://openalex.org/W2387178301","https://openalex.org/W3144733943","https://openalex.org/W2785993273","https://openalex.org/W2382269147","https://openalex.org/W3184323118","https://openalex.org/W2799462113","https://openalex.org/W36834100","https://openalex.org/W2376819606","https://openalex.org/W3013299922"],"abstract_inverted_index":{"SUMMARY:":[0],"sInterBase":[1,34,60],"is":[2,61],"a":[3,29],"comprehensive":[4],"and":[5,28,51],"easy-to-operate":[6],"web-based":[7],"platform":[8],"for":[9,54],"mining":[10],"experimentally":[11],"identified":[12],"sRNA-mRNA":[13],"interactions":[14,53],"in":[15,19],"Escherichia":[16],"coli.":[17],"Interactions":[18],"the":[20],"database":[21],"are":[22],"annotated":[23],"with":[24],"an":[25],"interaction":[26],"duplex":[27],"set":[30],"of":[31],"descriptive":[32],"features.":[33],"provides":[35],"advanced":[36],"functionality,":[37],"such":[38],"as":[39],"flexible":[40],"search":[41],"based":[42],"on":[43],"various":[44],"criteria,":[45],"statistical":[46],"analysis":[47],"via":[48],"charts,":[49],"browsing,":[50],"downloading":[52],"further":[55],"use.":[56],"AVAILABILITY":[57],"AND":[58],"IMPLEMENTATION:":[59],"available":[62],"at":[63],"https://sinterbase.cs.bgu.ac.il/.":[64]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2023-04-13T00:00:00"}
