{"id":"https://openalex.org/W2921158767","doi":"https://doi.org/10.1021/acs.biochem.9b00048","title":"Spectral Tuning by a Single Nucleotide Controls the Fluorescence Properties of a Fluorogenic Aptamer","display_name":"Spectral Tuning by a Single Nucleotide Controls the Fluorescence Properties of a Fluorogenic Aptamer","publication_year":2019,"publication_date":"2019-03-06","ids":{"openalex":"https://openalex.org/W2921158767","doi":"https://doi.org/10.1021/acs.biochem.9b00048","mag":"2921158767","pmid":"https://pubmed.ncbi.nlm.nih.gov/30838859"},"language":"en","primary_location":{"id":"doi:10.1021/acs.biochem.9b00048","doi":"https://doi.org/10.1021/acs.biochem.9b00048","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.biochem.9b00048","pdf_url":null,"source":{"id":"https://openalex.org/S104038378","display_name":"Biochemistry","issn_l":"0006-2960","issn":["0006-2960","1520-4995","1943-295X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-2"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biochemistry","raw_type":"journal-article"},"volume":null,"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/A5065970233","display_name":"Grigory S. Filonov","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I4387153466","display_name":"Weill Cornell Medicine","ror":"https://ror.org/02r109517","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295","https://openalex.org/I4387153466"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Grigory S. Filonov","raw_affiliation_strings":["Department of Pharmacology, Weill Medical College, Cornell University, New York, New York 10065, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology, Weill Medical College, Cornell University, New York, New York 10065, United States","institution_ids":["https://openalex.org/I205783295","https://openalex.org/I4387153466"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109998335","display_name":"Wenjiao Song","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I4387153466","display_name":"Weill Cornell Medicine","ror":"https://ror.org/02r109517","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295","https://openalex.org/I4387153466"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wenjiao Song","raw_affiliation_strings":["Department of Pharmacology, Weill Medical College, Cornell University, New York, New York 10065, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology, Weill Medical College, Cornell University, New York, New York 10065, United States","institution_ids":["https://openalex.org/I205783295","https://openalex.org/I4387153466"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046085522","display_name":"Samie R. Jaffrey","orcid":"https://orcid.org/0000-0003-3615-6958","observed_orcids":["https://orcid.org/0000-0003-3615-6958"]},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I4387153466","display_name":"Weill Cornell Medicine","ror":"https://ror.org/02r109517","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295","https://openalex.org/I4387153466"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Samie R. Jaffrey","raw_affiliation_strings":["Department of Pharmacology, Weill Medical College, Cornell University, New York, New York 10065, United States"],"raw_orcid":"https://orcid.org/0000-0003-3615-6958","affiliations":[{"raw_affiliation_string":"Department of Pharmacology, Weill Medical College, Cornell University, New York, New York 10065, United States","institution_ids":["https://openalex.org/I205783295","https://openalex.org/I4387153466"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5046085522"],"corresponding_institution_ids":["https://openalex.org/I205783295","https://openalex.org/I4387153466"],"apc_list":{"value":5000,"currency":"USD","value_usd":5000},"apc_paid":null,"fwci":1.6537,"has_fulltext":false,"cited_by_count":38,"citation_normalized_percentile":{"value":0.83604032,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"58","issue":"12","first_page":"1560","last_page":"1564"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.7354000210762024,"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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.7354000210762024,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.15230000019073486,"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":0.07750000059604645,"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/spectral-tuning","display_name":"spectral tuning","score":0.9070000052452087},{"id":"https://openalex.org/keywords/genetically-encoded-biosensors","display_name":"genetically encoded biosensors","score":0.8270000219345093},{"id":"https://openalex.org/keywords/rna-visualization","display_name":"RNA visualization","score":0.8059999942779541}],"concepts":[{"id":"https://openalex.org/C128972844","wikidata":"https://www.wikidata.org/wiki/Q418722","display_name":"Aptamer","level":2,"score":0.9072458148002625},{"id":"https://openalex.org/C2778617687","wikidata":"https://www.wikidata.org/wiki/Q2448456","display_name":"Fluorophore","level":3,"score":0.8945814371109009},{"id":"https://openalex.org/C91881484","wikidata":"https://www.wikidata.org/wiki/Q191807","display_name":"Fluorescence","level":2,"score":0.7297018766403198},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.6643168330192566},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.6182730197906494},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.5393182635307312},{"id":"https://openalex.org/C512185932","wikidata":"https://www.wikidata.org/wiki/Q28745","display_name":"Nucleotide","level":3,"score":0.5168933868408203},{"id":"https://openalex.org/C161624437","wikidata":"https://www.wikidata.org/wiki/Q1988322","display_name":"Small molecule","level":2,"score":0.41826316714286804},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.28905490040779114},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.18643057346343994},{"id":"https://openalex.org/C153911025","wikidata":"https://www.wikidata.org/wiki/Q7202","display_name":"Molecular biology","level":1,"score":0.1400759518146515},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0772356390953064},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005453","descriptor_name":"Fluorescence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005456","descriptor_name":"Fluorescent Dyes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005456","descriptor_name":"Fluorescent Dyes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010091","descriptor_name":"Oximes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D048288","descriptor_name":"Imidazolines","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D052157","descriptor_name":"Aptamers, Nucleotide","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D052157","descriptor_name":"Aptamers, Nucleotide","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D052157","descriptor_name":"Aptamers, Nucleotide","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D054856","descriptor_name":"G-Quadruplexes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1021/acs.biochem.9b00048","doi":"https://doi.org/10.1021/acs.biochem.9b00048","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.biochem.9b00048","pdf_url":null,"source":{"id":"https://openalex.org/S104038378","display_name":"Biochemistry","issn_l":"0006-2960","issn":["0006-2960","1520-4995","1943-295X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-2"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biochemistry","raw_type":"journal-article"},{"id":"pmid:30838859","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30838859","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":"Biochemistry","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G1652284184","display_name":"Novel fluorescent sensors for simple, sensitive, and specific protein detection","funder_award_id":"R01EB010249","funder_id":"https://openalex.org/F4320337363","funder_display_name":"National Institute of Biomedical Imaging and Bioengineering"},{"id":"https://openalex.org/G8797650642","display_name":"Engineering RNA-activated fluorescence switches for imaging RNA and RNA biology","funder_award_id":"R01NS064516","funder_id":"https://openalex.org/F4320337359","funder_display_name":"National Institute of Neurological Disorders and Stroke"}],"funders":[{"id":"https://openalex.org/F4320337359","display_name":"National Institute of Neurological Disorders and Stroke","ror":"https://ror.org/01s5ya894"},{"id":"https://openalex.org/F4320337363","display_name":"National Institute of Biomedical Imaging and Bioengineering","ror":"https://ror.org/00372qc85"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W1976135176","https://openalex.org/W1979646020","https://openalex.org/W2048055667","https://openalex.org/W2081886031","https://openalex.org/W2090212447","https://openalex.org/W2105332737","https://openalex.org/W2118984238","https://openalex.org/W2124259497","https://openalex.org/W2153924661","https://openalex.org/W2159128272","https://openalex.org/W2163017334","https://openalex.org/W2163474990","https://openalex.org/W2332645767","https://openalex.org/W2483473419","https://openalex.org/W2760454171","https://openalex.org/W2779423373"],"related_works":["https://openalex.org/W3092710444","https://openalex.org/W2048055667","https://openalex.org/W3176577954","https://openalex.org/W2527165984","https://openalex.org/W4236624564","https://openalex.org/W4400248713","https://openalex.org/W2332645767","https://openalex.org/W2734520622","https://openalex.org/W2627939525","https://openalex.org/W7222821505"],"abstract_inverted_index":{"Fluorogenic":[0],"aptamers":[1,6,38,162],"are":[2],"genetically":[3,32],"encoded":[4,33],"RNA":[5,29,37,79,128,141],"that":[7,47,103,123],"bind":[8,40],"and":[9,26,31,84,96,119],"induce":[10],"the":[11,41,70,91,113,117,134,144],"fluorescence":[12,51,105],"of":[13,58,72,88,112,116,146,160],"otherwise":[14],"nonfluorescent":[15],"small":[16,59,149],"molecule":[17,60,150],"dyes.":[18],"These":[19],"RNA-fluorophore":[20],"complexes":[21,46],"can":[22,39,142,156],"be":[23],"highly":[24,77],"fluorescent":[25],"useful":[27],"for":[28,55,133],"visualization":[30],"biosensors.":[34],"Notably,":[35],"different":[36,125],"same":[42],"fluorophore,":[43],"resulting":[44],"in":[45,75,126],"exhibit":[48],"spectrally":[49],"distinct":[50,98],"properties.":[52,166],"The":[53],"basis":[54],"spectral":[56,73,99,106,165],"tuning":[57,74,107],"fluorophores":[61],"has":[62],"not":[63],"yet":[64],"been":[65],"studied.":[66],"Here":[67],"we":[68],"explore":[69],"mechanism":[71,138],"three":[76],"related":[78],"aptamers,":[80],"Broccoli,":[81,83,86],"Orange":[82],"Red":[85],"each":[87,127],"which":[89,140],"binds":[90],"DFHO":[92,104],"(3,5-difluoro-4-hydroxybenzylidene":[93],"imidazolinone-2-oxime)":[94],"fluorophore":[95,118],"generates":[97],"emissions.":[100],"We":[101],"show":[102],"is":[108,124],"controlled":[109],"by":[110,139],"interaction":[111],"oxime":[114],"moiety":[115],"one":[120],"specific":[121],"nucleotide":[122],"aptamer.":[129],"Our":[130],"finding":[131,155],"presents,":[132],"first":[135],"time,":[136],"a":[137,147],"control":[143],"properties":[145],"bound":[148],"fluorophore.":[151],"More":[152],"broadly,":[153],"our":[154],"guide":[157],"further":[158],"development":[159],"fluorogenic":[161],"with":[163],"novel":[164]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":4}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2019-03-22T00:00:00"}