{"id":"https://openalex.org/W2137900657","doi":"https://doi.org/10.1109/bmei.2008.8","title":"Using Random Perturbation Method to Improve Efficacy Prediction of siRNA Sequences","display_name":"Using Random Perturbation Method to Improve Efficacy Prediction of siRNA Sequences","publication_year":2008,"publication_date":"2008-05-01","ids":{"openalex":"https://openalex.org/W2137900657","doi":"https://doi.org/10.1109/bmei.2008.8","mag":"2137900657"},"language":"en","primary_location":{"id":"doi:10.1109/bmei.2008.8","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bmei.2008.8","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 International Conference on BioMedical Engineering and Informatics","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5096840806","display_name":"Willard Frutiger","orcid":null},"institutions":[{"id":"https://openalex.org/I175392734","display_name":"Houghton University","ror":"https://ror.org/04vjs1b18","country_code":"US","type":"education","lineage":["https://openalex.org/I175392734"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Willard Frutiger","raw_affiliation_strings":["Department of Computer Science, Houghton College, Houghton, NY, USA","Dept. of Comput. Sci., Houghton Coll., Houghton, NY"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Houghton College, Houghton, NY, USA","institution_ids":["https://openalex.org/I175392734"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Houghton Coll., Houghton, NY","institution_ids":["https://openalex.org/I175392734"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039439408","display_name":"Jeremy D. Collins","orcid":"https://orcid.org/0000-0003-0707-1736"},"institutions":[{"id":"https://openalex.org/I175392734","display_name":"Houghton University","ror":"https://ror.org/04vjs1b18","country_code":"US","type":"education","lineage":["https://openalex.org/I175392734"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jeremy Collins","raw_affiliation_strings":["Department of Computer Science, Houghton College, Houghton, NY, USA","Dept. of Comput. Sci., Houghton Coll., Houghton, NY"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Houghton College, Houghton, NY, USA","institution_ids":["https://openalex.org/I175392734"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Houghton Coll., Houghton, NY","institution_ids":["https://openalex.org/I175392734"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101955737","display_name":"Wei Hu","orcid":"https://orcid.org/0000-0003-1589-4310"},"institutions":[{"id":"https://openalex.org/I175392734","display_name":"Houghton University","ror":"https://ror.org/04vjs1b18","country_code":"US","type":"education","lineage":["https://openalex.org/I175392734"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wei Hu","raw_affiliation_strings":["Department of Computer Science, Houghton College, Houghton, NY, USA","Dept. of Comput. Sci., Houghton Coll., Houghton, NY"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Houghton College, Houghton, NY, USA","institution_ids":["https://openalex.org/I175392734"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Houghton Coll., Houghton, NY","institution_ids":["https://openalex.org/I175392734"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5096840806"],"corresponding_institution_ids":["https://openalex.org/I175392734"],"apc_list":null,"apc_paid":null,"fwci":0.1347,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.55106396,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"194","last_page":"199"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10725","display_name":"RNA Interference and Gene Delivery","score":1.0,"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"}},"topics":[{"id":"https://openalex.org/T10725","display_name":"RNA Interference and Gene Delivery","score":1.0,"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"}},{"id":"https://openalex.org/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9995999932289124,"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/T10062","display_name":"MicroRNA in disease regulation","score":0.9904000163078308,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/small-interfering-rna","display_name":"Small interfering RNA","score":0.6257649064064026},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5933966636657715},{"id":"https://openalex.org/keywords/perturbation","display_name":"Perturbation (astronomy)","score":0.5490489602088928},{"id":"https://openalex.org/keywords/gene-silencing","display_name":"Gene silencing","score":0.4720493257045746},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4138474762439728},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2668308913707733},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.18014878034591675},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1486130952835083},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.11799031496047974},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.07616609334945679}],"concepts":[{"id":"https://openalex.org/C22615655","wikidata":"https://www.wikidata.org/wiki/Q203221","display_name":"Small interfering RNA","level":4,"score":0.6257649064064026},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5933966636657715},{"id":"https://openalex.org/C177918212","wikidata":"https://www.wikidata.org/wiki/Q803623","display_name":"Perturbation (astronomy)","level":2,"score":0.5490489602088928},{"id":"https://openalex.org/C119056186","wikidata":"https://www.wikidata.org/wiki/Q1431332","display_name":"Gene silencing","level":3,"score":0.4720493257045746},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4138474762439728},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2668308913707733},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.18014878034591675},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1486130952835083},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.11799031496047974},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.07616609334945679},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bmei.2008.8","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bmei.2008.8","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 International Conference on BioMedical Engineering and Informatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.49000000953674316,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320310246","display_name":"University of Rochester","ror":"https://ror.org/022kthw22"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":7,"referenced_works":["https://openalex.org/W1520518044","https://openalex.org/W2051713039","https://openalex.org/W2129222324","https://openalex.org/W2137489993","https://openalex.org/W2151432781","https://openalex.org/W2160923685","https://openalex.org/W2166802510"],"related_works":["https://openalex.org/W1996749599","https://openalex.org/W3140432620","https://openalex.org/W1978057048","https://openalex.org/W2165430941","https://openalex.org/W2418189762","https://openalex.org/W2105774848","https://openalex.org/W2065502723","https://openalex.org/W4388050945","https://openalex.org/W1981917339","https://openalex.org/W1649999227"],"abstract_inverted_index":{"Short":[0],"interfering":[1],"RNAs":[2],"(siRNAs)":[3],"can":[4,119],"be":[5],"used":[6],"to":[7,34,46,102],"silence":[8],"gene":[9],"expression.":[10],"The":[11,30,74],"potential":[12],"application":[13],"of":[14,23,27,32,50,76,92],"this":[15,77],"research":[16],"opens":[17],"the":[18,21,24,48,51,84,90],"door":[19],"for":[20],"development":[22],"future":[25],"generations":[26],"effective":[28,36],"drugs.":[29],"question":[31],"how":[33],"design":[35],"siRNAs":[37],"is":[38,45,79,100],"still":[39],"under":[40],"intense":[41],"study.":[42],"Our":[43,98],"motivation":[44],"improve":[47],"accuracy":[49],"simple":[52],"linear":[53],"model":[54],"studied":[55],"in":[56,96],"[1].":[57,97],"We":[58],"propose":[59],"a":[60,110],"new":[61,111],"random":[62,85],"perturbation":[63,86],"method":[64,87,99,117],"that":[65,118],"predicts":[66],"most":[67],"active":[68],"siRNA":[69,93],"candidates":[70],"with":[71],"high":[72],"accuracy.":[73],"contribution":[75],"paper":[78],"two-fold.":[80],"First,":[81],"we":[82,108,113],"developed":[83,109],"which":[88],"improved":[89],"prediction":[91],"sequence":[94],"efficacy":[95],"easy":[101],"implement":[103],"and":[104],"runs":[105],"efficiently.":[106],"Second,":[107],"method;":[112],"named":[114],"it":[115],"alpha":[116],"linearly":[120],"optimize":[121],"different":[122,125],"contributions":[123],"from":[124],"weight":[126],"sets.":[127]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
