{"id":"https://openalex.org/W68267872","doi":"https://doi.org/10.1007/978-1-59745-033-1_4","title":"In-Line Probing Analysis of Riboswitches","display_name":"In-Line Probing Analysis of Riboswitches","publication_year":2008,"publication_date":"2008-01-01","ids":{"openalex":"https://openalex.org/W68267872","doi":"https://doi.org/10.1007/978-1-59745-033-1_4","mag":"68267872","pmid":"https://pubmed.ncbi.nlm.nih.gov/18369975"},"language":"en","primary_location":{"id":"doi:10.1007/978-1-59745-033-1_4","doi":"https://doi.org/10.1007/978-1-59745-033-1_4","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-59745-033-1_4","pdf_url":null,"source":{"id":"https://openalex.org/S4210172139","display_name":"Methods in molecular biology","issn_l":"1064-3745","issn":["1064-3745","1940-6029"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-3","vabb-shw"],"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":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Methods In Molecular Biology\u2122","raw_type":"book-chapter"},"volume":{"id":"https://openalex.org/W2398906547","display_name":"Post-Transcriptional Gene Regulation"},"type":"book-chapter","is_traditional":true,"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/A5009737849","display_name":"Elizabeth E. Regulski","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Elizabeth E. Regulski","raw_affiliation_strings":["Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, CT, USA","Yale University  ;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, CT, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Yale University  ;","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058375820","display_name":"Ronald R. Breaker","orcid":"https://orcid.org/0000-0002-2165-536X","observed_orcids":["https://orcid.org/0000-0002-2165-536X"]},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ronald R. Breaker","raw_affiliation_strings":["Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, New Haven, USA","Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, USA","Howard Hughes Medical Institute","Yale University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, New Haven, USA","institution_ids":["https://openalex.org/I1344073410"]},{"raw_affiliation_string":"Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Howard Hughes Medical Institute","institution_ids":["https://openalex.org/I1344073410"]},{"raw_affiliation_string":"Yale University","institution_ids":["https://openalex.org/I32971472"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":18.0934,"has_fulltext":false,"cited_by_count":349,"citation_normalized_percentile":{"value":0.99709537,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"419","issue":null,"first_page":"53","last_page":"67"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9994999766349792,"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":0.9994999766349792,"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":0.0003000000142492354,"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":0.0,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/riboswitches","display_name":"riboswitches","score":0.9980000257492065},{"id":"https://openalex.org/keywords/rna-secondary-structure","display_name":"RNA secondary structure","score":0.9700000286102295},{"id":"https://openalex.org/keywords/ligand-binding","display_name":"ligand binding","score":0.8420000076293945},{"id":"https://openalex.org/keywords/allosteric-regulation","display_name":"allosteric regulation","score":0.824999988079071},{"id":"https://openalex.org/keywords/metabolite-binding","display_name":"metabolite binding","score":0.8009999990463257},{"id":"https://openalex.org/keywords/rna-structure-analysis","display_name":"RNA structure analysis","score":0.5849999785423279}],"concepts":[{"id":"https://openalex.org/C148625055","wikidata":"https://www.wikidata.org/wiki/Q418840","display_name":"Riboswitch","level":5,"score":0.6324872374534607},{"id":"https://openalex.org/C198352243","wikidata":"https://www.wikidata.org/wiki/Q37105","display_name":"Line (geometry)","level":2,"score":0.4837901294231415},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4013592004776001},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22939610481262207},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.17563802003860474},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09297823905944824},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.05603960156440735},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.03691980242729187},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.0}],"mesh":[{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004591","descriptor_name":"Electrophoresis, Polyacrylamide Gel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","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":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015336","descriptor_name":"Molecular Probe Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017931","descriptor_name":"DNA Primers","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020871","descriptor_name":"RNA Stability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1007/978-1-59745-033-1_4","doi":"https://doi.org/10.1007/978-1-59745-033-1_4","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-59745-033-1_4","pdf_url":null,"source":{"id":"https://openalex.org/S4210172139","display_name":"Methods in molecular biology","issn_l":"1064-3745","issn":["1064-3745","1940-6029"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-3","vabb-shw"],"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":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Methods In Molecular Biology\u2122","raw_type":"book-chapter"},{"id":"pmid:18369975","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18369975","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,"listed_in":[],"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":"Methods in molecular biology (Clifton, N.J.)","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":12,"referenced_works":["https://openalex.org/W1519479476","https://openalex.org/W1972708527","https://openalex.org/W1973589373","https://openalex.org/W2007909703","https://openalex.org/W2012879790","https://openalex.org/W2114001343","https://openalex.org/W2120200447","https://openalex.org/W2122282339","https://openalex.org/W2131841865","https://openalex.org/W2151957804","https://openalex.org/W2153461732","https://openalex.org/W2257112273"],"related_works":["https://openalex.org/W7097608770","https://openalex.org/W2406842301","https://openalex.org/W2278620519","https://openalex.org/W2124191447","https://openalex.org/W4410834420","https://openalex.org/W2051890060","https://openalex.org/W4243142319","https://openalex.org/W2069165607","https://openalex.org/W1507344930","https://openalex.org/W7099417856"],"abstract_inverted_index":{"Riboswitches":[0],"are":[1,19,24],"intricate,":[2],"metabolite-binding":[3],"RNA":[4,49,65],"structures":[5,93],"found":[6],"in":[7,15,37,40,76],"the":[8,16,28,61,92],"non-coding":[9],"regions":[10],"of":[11,30,33,60,64,74,94],"mRNA.":[12],"Allosteric":[13],"changes":[14],"riboswitch":[17],"that":[18],"induced":[20],"by":[21],"metabolite":[22],"binding":[23],"harnessed":[25],"to":[26,66,89],"control":[27],"genes":[29],"a":[31],"variety":[32],"essential":[34],"metabolic":[35],"pathways":[36],"eubacteria":[38],"and":[39,71],"some":[41],"eukaryotes.":[42],"In":[43],"this":[44,82,101],"chapter,":[45],"we":[46],"describe":[47],"an":[48,77],"structure":[50,69],"analysis":[51],"technique":[52],"called":[53],"\"in-line":[54],"probing.\"":[55],"This":[56],"assay":[57],"makes":[58],"use":[59],"natural":[62],"instability":[63],"elucidate":[67],"secondary":[68],"characteristics":[70],"ligand-binding":[72],"capabilities":[73],"riboswitches":[75],"entirely":[78],"protein-free":[79],"manner.":[80],"Although":[81],"method":[83],"has":[84],"most":[85],"frequently":[86],"been":[87],"used":[88],"examine":[90],"riboswitches,":[91],"any":[95],"RNAs":[96],"can":[97],"be":[98],"examined":[99],"using":[100],"technique.":[102]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":19},{"year":2024,"cited_by_count":18},{"year":2023,"cited_by_count":15},{"year":2022,"cited_by_count":23},{"year":2021,"cited_by_count":25},{"year":2020,"cited_by_count":19},{"year":2019,"cited_by_count":19},{"year":2018,"cited_by_count":27},{"year":2017,"cited_by_count":22},{"year":2016,"cited_by_count":22},{"year":2015,"cited_by_count":30},{"year":2014,"cited_by_count":19},{"year":2013,"cited_by_count":24},{"year":2012,"cited_by_count":16}],"updated_date":"2026-11-07T11:25:07.637180","created_date":"2016-06-24T00:00:00"}