{"id":"https://openalex.org/W2018706267","doi":"https://doi.org/10.6026/97320630004193","title":"Targeting pseudoknots in H5N1 hemagglutinin using designed aptamers","display_name":"Targeting pseudoknots in H5N1 hemagglutinin using designed aptamers","publication_year":2009,"publication_date":"2009-10-19","ids":{"openalex":"https://openalex.org/W2018706267","doi":"https://doi.org/10.6026/97320630004193","mag":"2018706267","pmid":"https://pubmed.ncbi.nlm.nih.gov/20461158","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/2859575"},"language":"en","primary_location":{"id":"doi:10.6026/97320630004193","doi":"https://doi.org/10.6026/97320630004193","is_oa":true,"landing_page_url":"https://doi.org/10.6026/97320630004193","pdf_url":"http://www.bioinformation.net/004/004600042009.pdf","source":{"id":"https://openalex.org/S2755911950","display_name":"Bioinformation","issn_l":"0973-2063","issn":["0973-2063","0973-8894"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","ki-jl-1","norway-1","poland-20","russia-white-list-2"],"host_organization":"https://openalex.org/P4328143488","host_organization_name":"Biomedical Informatics","host_organization_lineage":["https://openalex.org/P4328143488"],"host_organization_lineage_names":["Biomedical Informatics"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformation","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"http://www.bioinformation.net/004/004600042009.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101570948","display_name":"Priyanka Dhar","orcid":"https://orcid.org/0000-0001-6915-4268","observed_orcids":["https://orcid.org/0000-0001-6915-4268"]},"institutions":[{"id":"https://openalex.org/I1340206300","display_name":"Defence Research and Development Organisation","ror":"https://ror.org/05k37v296","country_code":"IN","type":"government","lineage":["https://openalex.org/I1340206300","https://openalex.org/I2799351866","https://openalex.org/I4210150591"]},{"id":"https://openalex.org/I4210090935","display_name":"Defence Institute of High Altitude Research","ror":"https://ror.org/00b0mey76","country_code":"IN","type":"facility","lineage":["https://openalex.org/I1340206300","https://openalex.org/I2799351866","https://openalex.org/I4210090935","https://openalex.org/I4210150591"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Priyanka Dhar","raw_affiliation_strings":["Defence Institute of High Altitude Research, DRDO, C/o 56 APO, Pin- 901205, India"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Defence Institute of High Altitude Research, DRDO, C/o 56 APO, Pin- 901205, India","institution_ids":["https://openalex.org/I1340206300","https://openalex.org/I4210090935"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017266613","display_name":"Sayak Ganguli","orcid":"https://orcid.org/0000-0001-5481-7436","observed_orcids":["https://orcid.org/0000-0001-5481-7436"]},"institutions":[{"id":"https://openalex.org/I157674215","display_name":"Presidency University","ror":"https://ror.org/04xgbph11","country_code":"IN","type":"education","lineage":["https://openalex.org/I157674215"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Sayak Ganguli","raw_affiliation_strings":["Bioinformatics Centre, Presidency College, Kolkata 700073, India;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, Presidency College, Kolkata 700073, India;","institution_ids":["https://openalex.org/I157674215"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034795112","display_name":"Abhijit Datta","orcid":"https://orcid.org/0009-0000-8227-4627","observed_orcids":["https://orcid.org/0009-0000-8227-4627"]},"institutions":[{"id":"https://openalex.org/I157674215","display_name":"Presidency University","ror":"https://ror.org/04xgbph11","country_code":"IN","type":"education","lineage":["https://openalex.org/I157674215"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Abhijit Datta","raw_affiliation_strings":["Bioinformatics Centre, Presidency College, Kolkata 700073, India;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, Presidency College, Kolkata 700073, India;","institution_ids":["https://openalex.org/I157674215"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.1091,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.42050487,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":93},"biblio":{"volume":"4","issue":"5","first_page":"193","last_page":"196"},"is_retracted":true,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9028000235557556,"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":0.9028000235557556,"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/T10167","display_name":"Influenza Virus Research Studies","score":0.07760000228881836,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.003800000064074993,"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/h5n1-influenza-virus","display_name":"H5N1 influenza virus","score":0.8849999904632568},{"id":"https://openalex.org/keywords/hemagglutinin","display_name":"hemagglutinin","score":0.9409999847412109},{"id":"https://openalex.org/keywords/rna-pseudoknots","display_name":"RNA pseudoknots","score":0.9049999713897705},{"id":"https://openalex.org/keywords/aptamer-design","display_name":"aptamer design","score":0.7699999809265137},{"id":"https://openalex.org/keywords/ribosomal-frameshifting","display_name":"ribosomal frameshifting","score":0.8730000257492065},{"id":"https://openalex.org/keywords/rna-secondary-structure","display_name":"RNA secondary structure","score":0.6769999861717224}],"concepts":[{"id":"https://openalex.org/C105130999","wikidata":"https://www.wikidata.org/wiki/Q414976","display_name":"Pseudoknot","level":4,"score":0.8219699859619141},{"id":"https://openalex.org/C2778692840","wikidata":"https://www.wikidata.org/wiki/Q9136673","display_name":"Hemagglutinin (influenza)","level":3,"score":0.7597628235816956},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.6493582129478455},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.620825469493866},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.618245542049408},{"id":"https://openalex.org/C519248777","wikidata":"https://www.wikidata.org/wiki/Q160122","display_name":"Influenza A virus subtype H5N1","level":3,"score":0.6172866821289062},{"id":"https://openalex.org/C128972844","wikidata":"https://www.wikidata.org/wiki/Q418722","display_name":"Aptamer","level":2,"score":0.5196996331214905},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5077260732650757},{"id":"https://openalex.org/C7842527","wikidata":"https://www.wikidata.org/wiki/Q575258","display_name":"Antigenic drift","level":4,"score":0.4334881901741028},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4295763671398163},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.41769057512283325},{"id":"https://openalex.org/C2522874641","wikidata":"https://www.wikidata.org/wiki/Q808","display_name":"Virus","level":2,"score":0.38137346506118774}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.6026/97320630004193","doi":"https://doi.org/10.6026/97320630004193","is_oa":true,"landing_page_url":"https://doi.org/10.6026/97320630004193","pdf_url":"http://www.bioinformation.net/004/004600042009.pdf","source":{"id":"https://openalex.org/S2755911950","display_name":"Bioinformation","issn_l":"0973-2063","issn":["0973-2063","0973-8894"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","ki-jl-1","norway-1","poland-20","russia-white-list-2"],"host_organization":"https://openalex.org/P4328143488","host_organization_name":"Biomedical Informatics","host_organization_lineage":["https://openalex.org/P4328143488"],"host_organization_lineage_names":["Biomedical Informatics"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformation","raw_type":"journal-article"},{"id":"pmid:20461158","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20461158","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":"Bioinformation","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2859575","doi":null,"is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC2859575/","pdf_url":null,"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,"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":"Bioinformation","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.6026/97320630004193","doi":"https://doi.org/10.6026/97320630004193","is_oa":true,"landing_page_url":"https://doi.org/10.6026/97320630004193","pdf_url":"http://www.bioinformation.net/004/004600042009.pdf","source":{"id":"https://openalex.org/S2755911950","display_name":"Bioinformation","issn_l":"0973-2063","issn":["0973-2063","0973-8894"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","ki-jl-1","norway-1","poland-20","russia-white-list-2"],"host_organization":"https://openalex.org/P4328143488","host_organization_name":"Biomedical Informatics","host_organization_lineage":["https://openalex.org/P4328143488"],"host_organization_lineage_names":["Biomedical Informatics"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformation","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2018706267.pdf","grobid_xml":"https://content.openalex.org/works/W2018706267.grobid-xml"},"referenced_works_count":22,"referenced_works":["https://openalex.org/W175036826","https://openalex.org/W1981316697","https://openalex.org/W1983806762","https://openalex.org/W2005674957","https://openalex.org/W2007550449","https://openalex.org/W2012192331","https://openalex.org/W2015762216","https://openalex.org/W2052374402","https://openalex.org/W2067191137","https://openalex.org/W2098276437","https://openalex.org/W2116682907","https://openalex.org/W2118890133","https://openalex.org/W2122385379","https://openalex.org/W2126309815","https://openalex.org/W2148734478","https://openalex.org/W2149409886","https://openalex.org/W2159946246","https://openalex.org/W2169038185","https://openalex.org/W2169751581","https://openalex.org/W2174154048","https://openalex.org/W2766033523","https://openalex.org/W4205978945"],"related_works":["https://openalex.org/W2053012619","https://openalex.org/W2054786975","https://openalex.org/W2419675982","https://openalex.org/W2022565929","https://openalex.org/W1988834851","https://openalex.org/W1976171351","https://openalex.org/W2152237596","https://openalex.org/W1560766373","https://openalex.org/W2144082356","https://openalex.org/W2067688640"],"abstract_inverted_index":{"Influenza":[0],"A":[1,114],"virus":[2,50],"subtype":[3],"H5N1":[4],"is":[5,19,45,55],"highly":[6],"contagious":[7],"among":[8,13],"birds,":[9],"causing":[10],"high":[11],"mortality":[12],"domestic":[14],"poultry.":[15],"The":[16],"viral":[17],"genome":[18],"contained":[20],"on":[21,37],"eight":[22],"single":[23,81],"RNA":[24,62,72,82],"strands":[25],"of":[26,40,71,94,112,136,151],"which":[27],"HA":[28,153],"encode":[29],"the":[30,38,41,49,52,59,64,105,109,134,148,152],"antigenic":[31],"glycoprotein":[32],"called":[33],"hemagglutinin.":[34],"Hemagglutinin":[35],"found":[36],"surface":[39],"influenza":[42],"viruses":[43],"and":[44,157],"responsible":[46],"for":[47,79,164],"binding":[48],"to":[51,84,88,132,138,146],"cell":[53],"that":[54,154],"being":[56],"infected.":[57],"Among":[58],"most":[60],"prevalent":[61],"structures":[63],"pseudoknot":[65,106],"motif":[66],"represents":[67],"an":[68],"important":[69,96],"piece":[70],"architecture,":[73],"as":[74,161],"it":[75],"provides":[76],"a":[77,80,90],"means":[78],"strand":[83],"fold":[85],"upon":[86],"itself":[87],"produce":[89],"globular":[91],"structure":[92],"capable":[93],"performing":[95],"biological":[97],"functions.":[98],"In":[99],"this":[100],"analysis":[101],"we":[102],"have":[103,120],"identified":[104],"motifs":[107],"in":[108],"hemagglutinin":[110,156],"gene":[111],"HPAI":[113],"(H5N1)":[115],"Asian":[116],"strains.":[117],"Specific":[118],"aptamers":[119,128],"been":[121],"designed":[122],"against":[123],"these":[124],"pseudoknots.":[125],"These":[126],"in-silico":[127],"can":[129],"be":[130,159],"used":[131,160],"hinder":[133],"ability":[135],"pseudoknots":[137],"facilitate":[139],"ribosomal":[140],"frameshifting.":[141],"This":[142],"may":[143],"ultimately":[144],"lead":[145],"reduce":[147],"coding":[149],"efficiency":[150],"encodes":[155],"might":[158],"molecular":[162],"medicine":[163],"H5N1.":[165]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2026-11-12T12:28:57.059296","created_date":"2016-06-24T00:00:00"}
