{"id":"https://openalex.org/W2137501448","doi":"https://doi.org/10.1093/database/bas027","title":"RNAiAtlas: a database for RNAi (siRNA) libraries and their specificity","display_name":"RNAiAtlas: a database for RNAi (siRNA) libraries and their specificity","publication_year":2012,"publication_date":"2012-06-14","ids":{"openalex":"https://openalex.org/W2137501448","doi":"https://doi.org/10.1093/database/bas027","mag":"2137501448","pmid":"https://pubmed.ncbi.nlm.nih.gov/22700939"},"language":"en","primary_location":{"id":"doi:10.1093/database/bas027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bas027","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bas027/1197953/bas027.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bas027/1197953/bas027.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5109145213","display_name":"S. Mazur","orcid":null},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"S. Mazur","raw_affiliation_strings":["Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany"],"affiliations":[{"raw_affiliation_string":"Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004115755","display_name":"G\u00e1bor Cs\u00facs","orcid":null},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]},{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]}],"countries":["CH","DE"],"is_corresponding":false,"raw_author_name":"G. Csucs","raw_affiliation_strings":["Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany and 2LMSC, ETH Zurich, Schafmattstr 18, 8093 Zurich, Switzerland","1Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany and 2LMSC, ETH Zurich, Schafmattstr 18, 8093 Zurich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany and 2LMSC, ETH Zurich, Schafmattstr 18, 8093 Zurich, Switzerland","institution_ids":["https://openalex.org/I223822909","https://openalex.org/I35440088"]},{"raw_affiliation_string":"1Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany and 2LMSC, ETH Zurich, Schafmattstr 18, 8093 Zurich, Switzerland","institution_ids":["https://openalex.org/I223822909"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5001309171","display_name":"Krzysztof Kozak","orcid":"https://orcid.org/0000-0002-1001-8592"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]},{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]}],"countries":["CH","DE"],"is_corresponding":false,"raw_author_name":"K. Kozak","raw_affiliation_strings":["Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany and 2LMSC, ETH Zurich, Schafmattstr 18, 8093 Zurich, Switzerland","1Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany and 2LMSC, ETH Zurich, Schafmattstr 18, 8093 Zurich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany and 2LMSC, ETH Zurich, Schafmattstr 18, 8093 Zurich, Switzerland","institution_ids":["https://openalex.org/I223822909","https://openalex.org/I35440088"]},{"raw_affiliation_string":"1Bioquant, University of Heidelberg, Screening, Im Neuenheimer Feld 267, D-69120 Heidelberg, Germany and 2LMSC, ETH Zurich, Schafmattstr 18, 8093 Zurich, Switzerland","institution_ids":["https://openalex.org/I223822909"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5109145213"],"corresponding_institution_ids":[],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.5253,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.65693379,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"2012","issue":"0","first_page":"bas027","last_page":"bas027"},"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":0.9998000264167786,"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":0.9959999918937683,"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/rna-interference","display_name":"RNA interference","score":0.7489210367202759},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6209118962287903},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5916801691055298},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5459179282188416},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5095930099487305},{"id":"https://openalex.org/keywords/oligonucleotide","display_name":"Oligonucleotide","score":0.4333270788192749},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.32969895005226135},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.32898151874542236},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.2857617139816284},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23667487502098083},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.19488173723220825},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.13103991746902466}],"concepts":[{"id":"https://openalex.org/C166703698","wikidata":"https://www.wikidata.org/wiki/Q201993","display_name":"RNA interference","level":4,"score":0.7489210367202759},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6209118962287903},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5916801691055298},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5459179282188416},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5095930099487305},{"id":"https://openalex.org/C129312508","wikidata":"https://www.wikidata.org/wiki/Q133686","display_name":"Oligonucleotide","level":3,"score":0.4333270788192749},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.32969895005226135},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.32898151874542236},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.2857617139816284},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23667487502098083},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.19488173723220825},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.13103991746902466}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D034622","descriptor_name":"RNA Interference","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D034622","descriptor_name":"RNA Interference","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D034622","descriptor_name":"RNA Interference","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055785","descriptor_name":"Gene Knockdown Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055785","descriptor_name":"Gene Knockdown Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055785","descriptor_name":"Gene Knockdown Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/database/bas027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bas027","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bas027/1197953/bas027.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},{"id":"pmid:22700939","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22700939","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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:3375015","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3375015","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"Database (Oxford)","raw_type":"Text"},{"id":"pmh:oai:www.research-collection.ethz.ch:20.500.11850/64833","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/64833","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database, 2012","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"doi:10.3929/ethz-b-000064833","is_oa":true,"landing_page_url":"https://doi.org/10.3929/ethz-b-000064833","pdf_url":null,"source":{"id":"https://openalex.org/S7407051236","display_name":"ETH Z\u00fcrich Research Collection","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1093/database/bas027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bas027","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bas027/1197953/bas027.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321652","display_name":"Eidgen\u00f6ssische Technische Hochschule Z\u00fcrich","ror":"https://ror.org/05a28rw58"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2137501448.pdf","grobid_xml":"https://content.openalex.org/works/W2137501448.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W1647075334","https://openalex.org/W1909478057","https://openalex.org/W1967654665","https://openalex.org/W1982944995","https://openalex.org/W2018840791","https://openalex.org/W2025567758","https://openalex.org/W2043641895","https://openalex.org/W2056561005","https://openalex.org/W2056894757","https://openalex.org/W2065221771","https://openalex.org/W2079921086","https://openalex.org/W2080886752","https://openalex.org/W2085064264","https://openalex.org/W2095509700","https://openalex.org/W2100600738","https://openalex.org/W2106082032","https://openalex.org/W2107903949","https://openalex.org/W2149664004","https://openalex.org/W2166802510","https://openalex.org/W2169718128"],"related_works":["https://openalex.org/W2387630553","https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2392921965","https://openalex.org/W1572871015","https://openalex.org/W2358755282","https://openalex.org/W2411232599","https://openalex.org/W1998876971"],"abstract_inverted_index":{"Large-scale":[0],"RNA":[1,11],"interference":[2],"(RNAi)":[3],"experiments,":[4],"especially":[5],"the":[6,18,32,44,49,65,81,101,105,116,119,134,153],"ones":[7],"based":[8],"on":[9,115],"short-interfering":[10],"(siRNA)":[12],"technology":[13],"became":[14],"increasingly":[15],"popular":[16],"over":[17],"past":[19],"years.":[20],"For":[21],"such":[22],"knock-down/screening":[23],"purposes,":[24],"different":[25],"companies":[26,66],"offer":[27],"sets":[28],"of":[29,38,48,70,104,109,118,145],"oligos/reagents":[30],"targeting":[31],"whole":[33],"genome":[34,82],"or":[35],"a":[36,53,68,130],"subset":[37],"it":[39,166],"for":[40,140],"various":[41],"organisms.":[42],"Obviously,":[43],"sequence":[45,106],"(and":[46],"structure)":[47],"corresponding":[50],"oligos":[51,88],"is":[52],"key":[54],"factor":[55],"in":[56,60,164],"obtaining":[57],"reliable":[58],"results":[59,172],"these":[61],"large-scale":[62],"studies":[63],"and":[64,143],"use":[67],"variety":[69],"(often":[71],"not":[72],"fully":[73],"public)":[74],"algorithms":[75],"to":[76,100,128,152],"design":[77],"them.":[78],"Nevertheless,":[79],"as":[80],"annotations":[83],"are":[84],"still":[85],"continuously":[86],"changing,":[87],"may":[89],"become":[90],"obsolete,":[91],"so":[92],"siRNA":[93],"reagents":[94],"should":[95],"be":[96],"periodically":[97],"re-annotated":[98],"according":[99],"latest":[102,158],"version":[103],"database":[107],"(which":[108],"course":[110],"has":[111,137],"serious":[112],"consequences":[113],"also":[114,168],"interpretation":[117],"screening":[120],"results).":[121],"In":[122],"our":[123],"article,":[124],"we":[125],"would":[126],"like":[127],"introduce":[129],"new":[131],"software/database":[132],"tool,":[133],"RNAiAtlas.":[135],"It":[136],"been":[138],"created":[139],"exploration,":[141],"analysis":[142,171],"distribution":[144],"large":[146],"scale":[147],"RNAi":[148],"libraries":[149],"(currently":[150],"limited":[151],"human":[154],"genome)":[155],"with":[156],"their":[157],"annotation":[159],"(including":[160],"former":[161],"history)":[162],"but":[163],"addition":[165],"contains":[167],"specific":[169],"on-target":[170],"(design":[173],"quality,":[174],"side":[175],"effects,":[176],"off-targets).":[177],"Database":[178],"URL:":[179],"http://www.rnaiatlas.ethz.ch.":[180]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":1}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
