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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">VIRsiRNAdb: a curated database of experimentally validated viral siRNA/shRNA</title>
<author><name sortKey="Thakur, Nishant" sort="Thakur, Nishant" uniqKey="Thakur N" first="Nishant" last="Thakur">Nishant Thakur</name>
</author>
<author><name sortKey="Qureshi, Abid" sort="Qureshi, Abid" uniqKey="Qureshi A" first="Abid" last="Qureshi">Abid Qureshi</name>
</author>
<author><name sortKey="Kumar, Manoj" sort="Kumar, Manoj" uniqKey="Kumar M" first="Manoj" last="Kumar">Manoj Kumar</name>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PMC</idno>
<idno type="pmid">22139916</idno>
<idno type="pmc">3245049</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245049</idno>
<idno type="RBID">PMC:3245049</idno>
<idno type="doi">10.1093/nar/gkr1147</idno>
<date when="2011">2011</date>
<idno type="wicri:Area/Pmc/Corpus">000966</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000966</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">VIRsiRNAdb: a curated database of experimentally validated viral siRNA/shRNA</title>
<author><name sortKey="Thakur, Nishant" sort="Thakur, Nishant" uniqKey="Thakur N" first="Nishant" last="Thakur">Nishant Thakur</name>
</author>
<author><name sortKey="Qureshi, Abid" sort="Qureshi, Abid" uniqKey="Qureshi A" first="Abid" last="Qureshi">Abid Qureshi</name>
</author>
<author><name sortKey="Kumar, Manoj" sort="Kumar, Manoj" uniqKey="Kumar M" first="Manoj" last="Kumar">Manoj Kumar</name>
</author>
</analytic>
<series><title level="j">Nucleic Acids Research</title>
<idno type="ISSN">0305-1048</idno>
<idno type="eISSN">1362-4962</idno>
<imprint><date when="2011">2011</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en"><p>RNAi technology has been emerging as a potential modality to inhibit viruses during past decade. In literature a few siRNA databases have been reported that focus on targeting human and mammalian genes but experimentally validated viral siRNA databases are lacking. We have developed VIRsiRNAdb, a manually curated database having comprehensive details of 1358 siRNA/shRNA targeting viral genome regions. Further, wherever available, information regarding alternative efficacies of above 300 siRNAs derived from different assays has also been incorporated. Important fields included in the database are siRNA sequence, virus subtype, target genome region, cell type, target object, experimental assay, efficacy, off-target and siRNA matching with reference viral sequences. Database also provides the users with facilities of advance search, browsing, data submission, linking to external databases and useful siRNA analysis tools especially siTarAlign which align the siRNA with reference viral genomes or user defined sequences. VIRsiRNAdb contains extensive details of siRNA/shRNA targeting 42 important human viruses including influenza virus, hepatitis B virus, HPV and SARS Corona virus. VIRsiRNAdb would prove useful for researchers in picking up the best viral siRNA for antiviral therapeutics development and also for developing better viral siRNA design tools. The database is freely available at <ext-link ext-link-type="uri" xlink:href="http://crdd.osdd.net/servers/virsirnadb">http://crdd.osdd.net/servers/virsirnadb</ext-link>
.</p>
</div>
</front>
<back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Nichol, St" uniqKey="Nichol S">ST Nichol</name>
</author>
<author><name sortKey="Arikawa, J" uniqKey="Arikawa J">J Arikawa</name>
</author>
<author><name sortKey="Kawaoka, Y" uniqKey="Kawaoka Y">Y Kawaoka</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Duffy, S" uniqKey="Duffy S">S Duffy</name>
</author>
<author><name sortKey="Shackelton, La" uniqKey="Shackelton L">LA Shackelton</name>
</author>
<author><name sortKey="Holmes, Ec" uniqKey="Holmes E">EC Holmes</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Arbuthnot, P" uniqKey="Arbuthnot P">P Arbuthnot</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Haasnoot, J" uniqKey="Haasnoot J">J Haasnoot</name>
</author>
<author><name sortKey="Westerhout, Em" uniqKey="Westerhout E">EM Westerhout</name>
</author>
<author><name sortKey="Berkhout, B" uniqKey="Berkhout B">B Berkhout</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Angaji, Sa" uniqKey="Angaji S">SA Angaji</name>
</author>
<author><name sortKey="Hedayati, Ss" uniqKey="Hedayati S">SS Hedayati</name>
</author>
<author><name sortKey="Poor, Rh" uniqKey="Poor R">RH Poor</name>
</author>
<author><name sortKey="Madani, S" uniqKey="Madani S">S Madani</name>
</author>
<author><name sortKey="Poor, Ss" uniqKey="Poor S">SS Poor</name>
</author>
<author><name sortKey="Panahi, S" uniqKey="Panahi S">S Panahi</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Davidson, Bl" uniqKey="Davidson B">BL Davidson</name>
</author>
<author><name sortKey="Mccray, Pb" uniqKey="Mccray P">PB McCray</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Fire, A" uniqKey="Fire A">A Fire</name>
</author>
<author><name sortKey="Xu, S" uniqKey="Xu S">S Xu</name>
</author>
<author><name sortKey="Montgomery, Mk" uniqKey="Montgomery M">MK Montgomery</name>
</author>
<author><name sortKey="Kostas, Sa" uniqKey="Kostas S">SA Kostas</name>
</author>
<author><name sortKey="Driver, Se" uniqKey="Driver S">SE Driver</name>
</author>
<author><name sortKey="Mello, Cc" uniqKey="Mello C">CC Mello</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Woessmann, W" uniqKey="Woessmann W">W Woessmann</name>
</author>
<author><name sortKey="Damm Welk, C" uniqKey="Damm Welk C">C Damm-Welk</name>
</author>
<author><name sortKey="Fuchs, U" uniqKey="Fuchs U">U Fuchs</name>
</author>
<author><name sortKey="Borkhardt, A" uniqKey="Borkhardt A">A Borkhardt</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Filipowicz, W" uniqKey="Filipowicz W">W Filipowicz</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Haasnoot, J" uniqKey="Haasnoot J">J Haasnoot</name>
</author>
<author><name sortKey="Berkhout, B" uniqKey="Berkhout B">B Berkhout</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Leonard, Jn" uniqKey="Leonard J">JN Leonard</name>
</author>
<author><name sortKey="Schaffer, Dv" uniqKey="Schaffer D">DV Schaffer</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Ge, Q" uniqKey="Ge Q">Q Ge</name>
</author>
<author><name sortKey="Mcmanus, Mt" uniqKey="Mcmanus M">MT McManus</name>
</author>
<author><name sortKey="Nguyen, T" uniqKey="Nguyen T">T Nguyen</name>
</author>
<author><name sortKey="Shen, Ch" uniqKey="Shen C">CH Shen</name>
</author>
<author><name sortKey="Sharp, Pa" uniqKey="Sharp P">PA Sharp</name>
</author>
<author><name sortKey="Eisen, Hn" uniqKey="Eisen H">HN Eisen</name>
</author>
<author><name sortKey="Chen, J" uniqKey="Chen J">J Chen</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Konishi, M" uniqKey="Konishi M">M Konishi</name>
</author>
<author><name sortKey="Wu, Ch" uniqKey="Wu C">CH Wu</name>
</author>
<author><name sortKey="Wu, Gy" uniqKey="Wu G">GY Wu</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Shi, Y" uniqKey="Shi Y">Y Shi</name>
</author>
<author><name sortKey="Yang, Dh" uniqKey="Yang D">DH Yang</name>
</author>
<author><name sortKey="Xiong, J" uniqKey="Xiong J">J Xiong</name>
</author>
<author><name sortKey="Jia, J" uniqKey="Jia J">J Jia</name>
</author>
<author><name sortKey="Huang, B" uniqKey="Huang B">B Huang</name>
</author>
<author><name sortKey="Jin, Yx" uniqKey="Jin Y">YX Jin</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Stevenson, M" uniqKey="Stevenson M">M Stevenson</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Tripp, Ra" uniqKey="Tripp R">RA Tripp</name>
</author>
<author><name sortKey="Tompkins, Sm" uniqKey="Tompkins S">SM Tompkins</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Chen, Y" uniqKey="Chen Y">Y Chen</name>
</author>
<author><name sortKey="Mahato, Ri" uniqKey="Mahato R">RI Mahato</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Ter Brake, O" uniqKey="Ter Brake O">O ter Brake</name>
</author>
<author><name sortKey="T Hooft, K" uniqKey="T Hooft K">K t Hooft</name>
</author>
<author><name sortKey="Liu, Yp" uniqKey="Liu Y">YP Liu</name>
</author>
<author><name sortKey="Centlivre, M" uniqKey="Centlivre M">M Centlivre</name>
</author>
<author><name sortKey="Von Eije, Kj" uniqKey="Von Eije K">KJ von Eije</name>
</author>
<author><name sortKey="Berkhout, B" uniqKey="Berkhout B">B Berkhout</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Vaishnaw, Ak" uniqKey="Vaishnaw A">AK Vaishnaw</name>
</author>
<author><name sortKey="Gollob, J" uniqKey="Gollob J">J Gollob</name>
</author>
<author><name sortKey="Gamba Vitalo, C" uniqKey="Gamba Vitalo C">C Gamba-Vitalo</name>
</author>
<author><name sortKey="Hutabarat, R" uniqKey="Hutabarat R">R Hutabarat</name>
</author>
<author><name sortKey="Sah, D" uniqKey="Sah D">D Sah</name>
</author>
<author><name sortKey="Meyers, R" uniqKey="Meyers R">R Meyers</name>
</author>
<author><name sortKey="De Fougerolles, T" uniqKey="De Fougerolles T">T de Fougerolles</name>
</author>
<author><name sortKey="Maraganore, J" uniqKey="Maraganore J">J Maraganore</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Lopez Fraga, M" uniqKey="Lopez Fraga M">M Lopez-Fraga</name>
</author>
<author><name sortKey="Martinez, T" uniqKey="Martinez T">T Martinez</name>
</author>
<author><name sortKey="Jimenez, A" uniqKey="Jimenez A">A Jimenez</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Shah, Ps" uniqKey="Shah P">PS Shah</name>
</author>
<author><name sortKey="Schaffer, Dv" uniqKey="Schaffer D">DV Schaffer</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Devincenzo, J" uniqKey="Devincenzo J">J DeVincenzo</name>
</author>
<author><name sortKey="Lambkin Williams, R" uniqKey="Lambkin Williams R">R Lambkin-Williams</name>
</author>
<author><name sortKey="Wilkinson, T" uniqKey="Wilkinson T">T Wilkinson</name>
</author>
<author><name sortKey="Cehelsky, J" uniqKey="Cehelsky J">J Cehelsky</name>
</author>
<author><name sortKey="Nochur, S" uniqKey="Nochur S">S Nochur</name>
</author>
<author><name sortKey="Walsh, E" uniqKey="Walsh E">E Walsh</name>
</author>
<author><name sortKey="Meyers, R" uniqKey="Meyers R">R Meyers</name>
</author>
<author><name sortKey="Gollob, J" uniqKey="Gollob J">J Gollob</name>
</author>
<author><name sortKey="Vaishnaw, A" uniqKey="Vaishnaw A">A Vaishnaw</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Haussecker, D" uniqKey="Haussecker D">D Haussecker</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Lanford, Re" uniqKey="Lanford R">RE Lanford</name>
</author>
<author><name sortKey="Hildebrandt Eriksen, Es" uniqKey="Hildebrandt Eriksen E">ES Hildebrandt-Eriksen</name>
</author>
<author><name sortKey="Petri, A" uniqKey="Petri A">A Petri</name>
</author>
<author><name sortKey="Persson, R" uniqKey="Persson R">R Persson</name>
</author>
<author><name sortKey="Lindow, M" uniqKey="Lindow M">M Lindow</name>
</author>
<author><name sortKey="Munk, Me" uniqKey="Munk M">ME Munk</name>
</author>
<author><name sortKey="Kauppinen, S" uniqKey="Kauppinen S">S Kauppinen</name>
</author>
<author><name sortKey="Orum, H" uniqKey="Orum H">H Orum</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Digiusto, Dl" uniqKey="Digiusto D">DL DiGiusto</name>
</author>
<author><name sortKey="Krishnan, A" uniqKey="Krishnan A">A Krishnan</name>
</author>
<author><name sortKey="Li, L" uniqKey="Li L">L Li</name>
</author>
<author><name sortKey="Li, H" uniqKey="Li H">H Li</name>
</author>
<author><name sortKey="Li, S" uniqKey="Li S">S Li</name>
</author>
<author><name sortKey="Rao, A" uniqKey="Rao A">A Rao</name>
</author>
<author><name sortKey="Mi, S" uniqKey="Mi S">S Mi</name>
</author>
<author><name sortKey="Yam, P" uniqKey="Yam P">P Yam</name>
</author>
<author><name sortKey="Stinson, S" uniqKey="Stinson S">S Stinson</name>
</author>
<author><name sortKey="Kalos, M" uniqKey="Kalos M">M Kalos</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Tyagi, A" uniqKey="Tyagi A">A Tyagi</name>
</author>
<author><name sortKey="Ahmed, F" uniqKey="Ahmed F">F Ahmed</name>
</author>
<author><name sortKey="Thakur, N" uniqKey="Thakur N">N Thakur</name>
</author>
<author><name sortKey="Sharma, A" uniqKey="Sharma A">A Sharma</name>
</author>
<author><name sortKey="Raghava, Gps" uniqKey="Raghava G">GPS Raghava</name>
</author>
<author><name sortKey="Kumar, M" uniqKey="Kumar M">M Kumar</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Truss, M" uniqKey="Truss M">M Truss</name>
</author>
<author><name sortKey="Swat, M" uniqKey="Swat M">M Swat</name>
</author>
<author><name sortKey="Kielbasa, Sm" uniqKey="Kielbasa S">SM Kielbasa</name>
</author>
<author><name sortKey="Schafer, R" uniqKey="Schafer R">R Schafer</name>
</author>
<author><name sortKey="Herzel, H" uniqKey="Herzel H">H Herzel</name>
</author>
<author><name sortKey="Hagemeier, C" uniqKey="Hagemeier C">C Hagemeier</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Chalk, Am" uniqKey="Chalk A">AM Chalk</name>
</author>
<author><name sortKey="Warfinge, Re" uniqKey="Warfinge R">RE Warfinge</name>
</author>
<author><name sortKey="Georgii Hemming, P" uniqKey="Georgii Hemming P">P Georgii-Hemming</name>
</author>
<author><name sortKey="Sonnhammer, El" uniqKey="Sonnhammer E">EL Sonnhammer</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Ren, Y" uniqKey="Ren Y">Y Ren</name>
</author>
<author><name sortKey="Gong, W" uniqKey="Gong W">W Gong</name>
</author>
<author><name sortKey="Xu, Q" uniqKey="Xu Q">Q Xu</name>
</author>
<author><name sortKey="Zheng, X" uniqKey="Zheng X">X Zheng</name>
</author>
<author><name sortKey="Lin, D" uniqKey="Lin D">D Lin</name>
</author>
<author><name sortKey="Wang, Y" uniqKey="Wang Y">Y Wang</name>
</author>
<author><name sortKey="Li, T" uniqKey="Li T">T Li</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Dash, R" uniqKey="Dash R">R Dash</name>
</author>
<author><name sortKey="Moharana, Ss" uniqKey="Moharana S">SS Moharana</name>
</author>
<author><name sortKey="Reddy, As" uniqKey="Reddy A">AS Reddy</name>
</author>
<author><name sortKey="Sastry, Gm" uniqKey="Sastry G">GM Sastry</name>
</author>
<author><name sortKey="Sastry, Gn" uniqKey="Sastry G">GN Sastry</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Zuker, M" uniqKey="Zuker M">M Zuker</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Jackson, Al" uniqKey="Jackson A">AL Jackson</name>
</author>
<author><name sortKey="Bartz, Sr" uniqKey="Bartz S">SR Bartz</name>
</author>
<author><name sortKey="Schelter, J" uniqKey="Schelter J">J Schelter</name>
</author>
<author><name sortKey="Kobayashi, Sv" uniqKey="Kobayashi S">SV Kobayashi</name>
</author>
<author><name sortKey="Burchard, J" uniqKey="Burchard J">J Burchard</name>
</author>
<author><name sortKey="Mao, M" uniqKey="Mao M">M Mao</name>
</author>
<author><name sortKey="Li, B" uniqKey="Li B">B Li</name>
</author>
<author><name sortKey="Cavet, G" uniqKey="Cavet G">G Cavet</name>
</author>
<author><name sortKey="Linsley, Ps" uniqKey="Linsley P">PS Linsley</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Birmingham, A" uniqKey="Birmingham A">A Birmingham</name>
</author>
<author><name sortKey="Anderson, Em" uniqKey="Anderson E">EM Anderson</name>
</author>
<author><name sortKey="Reynolds, A" uniqKey="Reynolds A">A Reynolds</name>
</author>
<author><name sortKey="Ilsley Tyree, D" uniqKey="Ilsley Tyree D">D Ilsley-Tyree</name>
</author>
<author><name sortKey="Leake, D" uniqKey="Leake D">D Leake</name>
</author>
<author><name sortKey="Fedorov, Y" uniqKey="Fedorov Y">Y Fedorov</name>
</author>
<author><name sortKey="Baskerville, S" uniqKey="Baskerville S">S Baskerville</name>
</author>
<author><name sortKey="Maksimova, E" uniqKey="Maksimova E">E Maksimova</name>
</author>
<author><name sortKey="Robinson, K" uniqKey="Robinson K">K Robinson</name>
</author>
<author><name sortKey="Karpilow, J" uniqKey="Karpilow J">J Karpilow</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Anderson, Em" uniqKey="Anderson E">EM Anderson</name>
</author>
<author><name sortKey="Birmingham, A" uniqKey="Birmingham A">A Birmingham</name>
</author>
<author><name sortKey="Baskerville, S" uniqKey="Baskerville S">S Baskerville</name>
</author>
<author><name sortKey="Reynolds, A" uniqKey="Reynolds A">A Reynolds</name>
</author>
<author><name sortKey="Maksimova, E" uniqKey="Maksimova E">E Maksimova</name>
</author>
<author><name sortKey="Leake, D" uniqKey="Leake D">D Leake</name>
</author>
<author><name sortKey="Fedorov, Y" uniqKey="Fedorov Y">Y Fedorov</name>
</author>
<author><name sortKey="Karpilow, J" uniqKey="Karpilow J">J Karpilow</name>
</author>
<author><name sortKey="Khvorova, A" uniqKey="Khvorova A">A Khvorova</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Ui Tei, K" uniqKey="Ui Tei K">K Ui-Tei</name>
</author>
<author><name sortKey="Naito, Y" uniqKey="Naito Y">Y Naito</name>
</author>
<author><name sortKey="Nishi, K" uniqKey="Nishi K">K Nishi</name>
</author>
<author><name sortKey="Juni, A" uniqKey="Juni A">A Juni</name>
</author>
<author><name sortKey="Saigo, K" uniqKey="Saigo K">K Saigo</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Jackson, Al" uniqKey="Jackson A">AL Jackson</name>
</author>
<author><name sortKey="Linsley, Ps" uniqKey="Linsley P">PS Linsley</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Altschul, Sf" uniqKey="Altschul S">SF Altschul</name>
</author>
<author><name sortKey="Gish, W" uniqKey="Gish W">W Gish</name>
</author>
<author><name sortKey="Miller, W" uniqKey="Miller W">W Miller</name>
</author>
<author><name sortKey="Myers, Ew" uniqKey="Myers E">EW Myers</name>
</author>
<author><name sortKey="Lipman, Dj" uniqKey="Lipman D">DJ Lipman</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Chalk, Am" uniqKey="Chalk A">AM Chalk</name>
</author>
<author><name sortKey="Sonnhammer, El" uniqKey="Sonnhammer E">EL Sonnhammer</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Naito, Y" uniqKey="Naito Y">Y Naito</name>
</author>
<author><name sortKey="Ui Tei, K" uniqKey="Ui Tei K">K Ui-Tei</name>
</author>
<author><name sortKey="Nishikawa, T" uniqKey="Nishikawa T">T Nishikawa</name>
</author>
<author><name sortKey="Takebe, Y" uniqKey="Takebe Y">Y Takebe</name>
</author>
<author><name sortKey="Saigo, K" uniqKey="Saigo K">K Saigo</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Naito, Y" uniqKey="Naito Y">Y Naito</name>
</author>
<author><name sortKey="Nohtomi, K" uniqKey="Nohtomi K">K Nohtomi</name>
</author>
<author><name sortKey="Onogi, T" uniqKey="Onogi T">T Onogi</name>
</author>
<author><name sortKey="Uenishi, R" uniqKey="Uenishi R">R Uenishi</name>
</author>
<author><name sortKey="Ui Tei, K" uniqKey="Ui Tei K">K Ui-Tei</name>
</author>
<author><name sortKey="Saigo, K" uniqKey="Saigo K">K Saigo</name>
</author>
<author><name sortKey="Takebe, Y" uniqKey="Takebe Y">Y Takebe</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Myers, Ew" uniqKey="Myers E">EW Myers</name>
</author>
<author><name sortKey="Miller, W" uniqKey="Miller W">W Miller</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Das, At" uniqKey="Das A">AT Das</name>
</author>
<author><name sortKey="Brummelkamp, Tr" uniqKey="Brummelkamp T">TR Brummelkamp</name>
</author>
<author><name sortKey="Westerhout, Em" uniqKey="Westerhout E">EM Westerhout</name>
</author>
<author><name sortKey="Vink, M" uniqKey="Vink M">M Vink</name>
</author>
<author><name sortKey="Madiredjo, M" uniqKey="Madiredjo M">M Madiredjo</name>
</author>
<author><name sortKey="Bernards, R" uniqKey="Bernards R">R Bernards</name>
</author>
<author><name sortKey="Berkhout, B" uniqKey="Berkhout B">B Berkhout</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Wilson, Ja" uniqKey="Wilson J">JA Wilson</name>
</author>
<author><name sortKey="Richardson, Cd" uniqKey="Richardson C">CD Richardson</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Konishi, M" uniqKey="Konishi M">M Konishi</name>
</author>
<author><name sortKey="Wu, Ch" uniqKey="Wu C">CH Wu</name>
</author>
<author><name sortKey="Kaito, M" uniqKey="Kaito M">M Kaito</name>
</author>
<author><name sortKey="Hayashi, K" uniqKey="Hayashi K">K Hayashi</name>
</author>
<author><name sortKey="Watanabe, S" uniqKey="Watanabe S">S Watanabe</name>
</author>
<author><name sortKey="Adachi, Y" uniqKey="Adachi Y">Y Adachi</name>
</author>
<author><name sortKey="Wu, Gy" uniqKey="Wu G">GY Wu</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Jun, Ej" uniqKey="Jun E">EJ Jun</name>
</author>
<author><name sortKey="Nam, Yr" uniqKey="Nam Y">YR Nam</name>
</author>
<author><name sortKey="Ahn, J" uniqKey="Ahn J">J Ahn</name>
</author>
<author><name sortKey="Tchah, H" uniqKey="Tchah H">H Tchah</name>
</author>
<author><name sortKey="Joo, Ch" uniqKey="Joo C">CH Joo</name>
</author>
<author><name sortKey="Jee, Y" uniqKey="Jee Y">Y Jee</name>
</author>
<author><name sortKey="Kim, Yk" uniqKey="Kim Y">YK Kim</name>
</author>
<author><name sortKey="Lee, H" uniqKey="Lee H">H Lee</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Rice, P" uniqKey="Rice P">P Rice</name>
</author>
<author><name sortKey="Longden, I" uniqKey="Longden I">I Longden</name>
</author>
<author><name sortKey="Bleasby, A" uniqKey="Bleasby A">A Bleasby</name>
</author>
</analytic>
</biblStruct>
</listBibl>
</div1>
</back>
</TEI>
<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Nucleic Acids Res</journal-id>
<journal-id journal-id-type="iso-abbrev">Nucleic Acids Res</journal-id>
<journal-id journal-id-type="publisher-id">nar</journal-id>
<journal-id journal-id-type="hwp">nar</journal-id>
<journal-title-group><journal-title>Nucleic Acids Research</journal-title>
</journal-title-group>
<issn pub-type="ppub">0305-1048</issn>
<issn pub-type="epub">1362-4962</issn>
<publisher><publisher-name>Oxford University Press</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">22139916</article-id>
<article-id pub-id-type="pmc">3245049</article-id>
<article-id pub-id-type="doi">10.1093/nar/gkr1147</article-id>
<article-id pub-id-type="publisher-id">gkr1147</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Articles</subject>
</subj-group>
</article-categories>
<title-group><article-title>VIRsiRNAdb: a curated database of experimentally validated viral siRNA/shRNA</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Thakur</surname>
<given-names>Nishant</given-names>
</name>
</contrib>
<contrib contrib-type="author"><name><surname>Qureshi</surname>
<given-names>Abid</given-names>
</name>
</contrib>
<contrib contrib-type="author"><name><surname>Kumar</surname>
<given-names>Manoj</given-names>
</name>
<xref ref-type="corresp" rid="gkr1147-COR1">*</xref>
</contrib>
</contrib-group>
<aff>Bioinformatics Centre, Institute of Microbial Technology, Council of Scientific and Industrial Research (CSIR), Sector 39-A, Chandigarh-160036, India</aff>
<author-notes><corresp id="gkr1147-COR1">*To whom correspondence should be addressed. Tel: <phone>+91 172 6665453</phone>
; Fax: <fax>+91 172 2690632</fax>
; Email: <email>manojk@imtech.res.in</email>
; <email>manojkumardelhi@yahoo.co.in</email>
</corresp>
<fn><p>The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors.</p>
</fn>
</author-notes>
<pub-date pub-type="ppub"><month>1</month>
<year>2012</year>
</pub-date>
<pub-date pub-type="epub"><day>1</day>
<month>12</month>
<year>2011</year>
</pub-date>
<pub-date pub-type="pmc-release"><day>1</day>
<month>12</month>
<year>2011</year>
</pub-date>
<pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
. </pmc-comment>
<volume>40</volume>
<issue>Database issue</issue>
<issue-title>Database issue</issue-title>
<fpage>D230</fpage>
<lpage>D236</lpage>
<history><date date-type="received"><day>15</day>
<month>8</month>
<year>2011</year>
</date>
<date date-type="rev-recd"><day>4</day>
<month>10</month>
<year>2011</year>
</date>
<date date-type="accepted"><day>9</day>
<month>11</month>
<year>2011</year>
</date>
</history>
<permissions><copyright-statement>© The Author(s) 2011. Published by Oxford University Press.</copyright-statement>
<copyright-year>2011</copyright-year>
<license license-type="creative-commons" xlink:href="http://creativecommons.org/licenses/by-nc/3.0"><license-p><pmc-comment>CREATIVE COMMONS</pmc-comment>
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by-nc/3.0">http://creativecommons.org/licenses/by-nc/3.0</ext-link>
), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.</license-p>
</license>
</permissions>
<abstract><p>RNAi technology has been emerging as a potential modality to inhibit viruses during past decade. In literature a few siRNA databases have been reported that focus on targeting human and mammalian genes but experimentally validated viral siRNA databases are lacking. We have developed VIRsiRNAdb, a manually curated database having comprehensive details of 1358 siRNA/shRNA targeting viral genome regions. Further, wherever available, information regarding alternative efficacies of above 300 siRNAs derived from different assays has also been incorporated. Important fields included in the database are siRNA sequence, virus subtype, target genome region, cell type, target object, experimental assay, efficacy, off-target and siRNA matching with reference viral sequences. Database also provides the users with facilities of advance search, browsing, data submission, linking to external databases and useful siRNA analysis tools especially siTarAlign which align the siRNA with reference viral genomes or user defined sequences. VIRsiRNAdb contains extensive details of siRNA/shRNA targeting 42 important human viruses including influenza virus, hepatitis B virus, HPV and SARS Corona virus. VIRsiRNAdb would prove useful for researchers in picking up the best viral siRNA for antiviral therapeutics development and also for developing better viral siRNA design tools. The database is freely available at <ext-link ext-link-type="uri" xlink:href="http://crdd.osdd.net/servers/virsirnadb">http://crdd.osdd.net/servers/virsirnadb</ext-link>
.</p>
</abstract>
<counts><page-count count="7"></page-count>
</counts>
</article-meta>
</front>
<body><sec sec-type="intro"><title>INTRODUCTION</title>
<p>Viral diseases remain one of the public health problems due to emerging and reemerging nature of viruses such as influenza, hepatitis, Human Immunodeficiency Virus (HIV), Human Papillomavirus (HPV) & Severe Acute Respiratory Syndrome (SARS) etc. (<xref rid="gkr1147-B1" ref-type="bibr">1</xref>
). Combating majority of these viruses is compromised due to lack of effective vaccines and antiviral drugs (<xref rid="gkr1147-B2" ref-type="bibr">2</xref>
). Besides, development of new vaccines and antiviral drugs, there are continuous efforts to search for alternative therapeutic interventions. Lately, RNA interference has emerged as a potential approach in the battle against pathogenic viruses (<xref rid="gkr1147-B3" ref-type="bibr">3</xref>
,<xref rid="gkr1147-B4" ref-type="bibr">4</xref>
) and other human diseases (<xref rid="gkr1147-B5" ref-type="bibr">5</xref>
,<xref rid="gkr1147-B6" ref-type="bibr">6</xref>
).</p>
<p>RNAi was first reported by Fire <italic>et al</italic>
. (<xref rid="gkr1147-B7" ref-type="bibr">7</xref>
) when authors showed a potent gene silencing effect after injecting double stranded RNA into <italic>C. elegans</italic>
. In RNA silencing pathway, long dsRNA is processed by RNase III family member, dicer, to a 19–21 nucleotide long double stranded siRNA, with 2-nucleotide unphosphorylated 3′ overhangs (<xref rid="gkr1147-B8" ref-type="bibr">8</xref>
). The double stranded siRNA is composed of a guide (antisense) strand and a passenger (sense) strand. Unwinding of the siRNA duplex is catalyzed by argonaute. After the unwinding step, the guide strand is incorporated into the RNA Induced Silencing Complex (RISC), while the passenger strand is released. Using the antisense strand RISC targets, the complementary mRNA resulting in the cleavage of the latter (<xref rid="gkr1147-B9" ref-type="bibr">9</xref>
).</p>
<p>Using RNA silencing mechanism, researchers have reported considerable decrease in the expression of targeted viral genes (<xref rid="gkr1147-B10" ref-type="bibr">10</xref>
,<xref rid="gkr1147-B11" ref-type="bibr">11</xref>
). For example, siRNAs directed against the influenza virus nucleocapsid (NP) and RNA transcriptase (PA) genes inhibited its transcription and replication (<xref rid="gkr1147-B12" ref-type="bibr">12</xref>
). Similarly, siRNAs against the hepatitis B virus polyadenylation (PA), precore (PreC) and surface (S) regions inhibited the viral replication (<xref rid="gkr1147-B13" ref-type="bibr">13</xref>
). In another study, siRNAs synthesized to target the E, M and N genes of SARS-CoV effectively down regulated the target genes expression by over 80% in a dose-dependent manner (<xref rid="gkr1147-B14" ref-type="bibr">14</xref>
). Inhibition of virus replication for several human viruses using RNAi strategy has been reviewed (<xref rid="gkr1147-B3" ref-type="bibr">3</xref>
,<xref rid="gkr1147-B15" ref-type="bibr">15</xref>
,<xref rid="gkr1147-B16" ref-type="bibr">16</xref>
).</p>
<p>RNAi approach offers several advantages for antiviral therapeutics development. It has ability to target all types of viral genomes [ssDNA, dsDNA, RNA(+), RNA(−) and dsRNA] which makes this versatile mechanism to be harnessed as broad-spectrum antiviral therapy (<xref rid="gkr1147-B4" ref-type="bibr">4</xref>
). Further, RNAi targets a short stretch of viral nucleic acids instead of a functional domain of a viral protein, therefore, even a small viral genome offers many potential targets (<xref rid="gkr1147-B11" ref-type="bibr">11</xref>
). Even more, multiple antiviral siRNAs can be expressed simultaneously or pooled in a way similar to current drug combination anti-viral therapy of infected individuals to sustain prolonged effect (<xref rid="gkr1147-B17" ref-type="bibr">17</xref>
,<xref rid="gkr1147-B18" ref-type="bibr">18</xref>
).</p>
<p>In the past decade, a number of RNAi therapeutic programs with focus on cancer, metabolic diseases, respiratory disorders, retinal degeneration, dominantly inherited brain and skin diseases and infectious diseases have entered the clinical practice (<xref rid="gkr1147-B6" ref-type="bibr">6</xref>
,<xref rid="gkr1147-B19" ref-type="bibr">19</xref>
,<xref rid="gkr1147-B20" ref-type="bibr">20</xref>
). Simultaneously, several RNAi based antiviral therapeutic projects have also reached at clinical trial stages (<xref rid="gkr1147-B21" ref-type="bibr">21</xref>
), for example, RSV (Phase II) (<xref rid="gkr1147-B22" ref-type="bibr">22</xref>
), HBV (Phase I) (<xref rid="gkr1147-B23" ref-type="bibr">23</xref>
), HCV (Phase II) (<xref rid="gkr1147-B24" ref-type="bibr">24</xref>
) and HIV (Phase I) (<xref rid="gkr1147-B25" ref-type="bibr">25</xref>
). Ongoing clinical trials further emphasize the need for development of the viral RNAi resources.</p>
<p>There is no dedicated viral siRNA database, except HIVsirDB, an HIV specific siRNA database (<xref rid="gkr1147-B26" ref-type="bibr">26</xref>
). However, there are a few other siRNA databases reported in literature like HuSiDa (<xref rid="gkr1147-B27" ref-type="bibr">27</xref>
) and siRNAdb (<xref rid="gkr1147-B28" ref-type="bibr">28</xref>
) which provide sequences of published functional siRNA targeting human genes while siRecords (<xref rid="gkr1147-B29" ref-type="bibr">29</xref>
) focused on siRNA data of mammalian RNAi experiments and DSTHO (<xref rid="gkr1147-B30" ref-type="bibr">30</xref>
) on human oncogenes. VIRsiRNAdb is an attempt to provide comprehensive details of the experimentally validated viral siRNA targeting the diverse genome regions of as many as 42 important human viruses at one platform to help researchers working in the field of siRNA based antiviral therapeutic development.</p>
</sec>
<sec><title>DATABASE CONTENT</title>
<sec><title>Data acquisition</title>
<p>Exhaustive literature search was carried out to extract the relevant articles from PubMed. This was accomplished by searching queries having combination of two keywords: (i) terms most commonly used for gene silencing viz: RNA interference, RNAi, silencing, siRNA(s), shRNA(s), small interfering RNA(s), short interfering RNA(s), small hairpin RNA(s) and short hairpin RNA(s) and (ii) virus names including their common names, aliases & abbreviations (like Severe acute respiratory syndrome, SARS, Corona Virus, SARS-CoV). Full text search using the above two keywords combinations was performed for each of the human viruses individually. The search results are given in <ext-link ext-link-type="uri" xlink:href="http://nar.oxfordjournals.org/cgi/content/full/gkr1147/DC1">Supplementary Table S1</ext-link>
. Around 4000 abstracts were screened so as to select the articles likely to contain relevant viral siRNA information. Reviews, general methodological and non-English articles were not considered. After initial screening, around 1000 remaining potential articles were examined in detail to retrieve the viral siRNA information. Articles of siRNAs targeting the host genome regions were excluded. Further, articles that did not have individual siRNA sequence or its experimental efficacies were also not included. After this extensive filtering, 221 research articles were shortlisted to collect the siRNA data. In our database, complete siRNA data of almost all human viruses reported in the literature have been included.</p>
</sec>
<sec><title>Database architecture</title>
<p>The database provides comprehensive information of experimentally validated viral siRNAs which includes: (i) siRNA sequence, (ii) family of virus, (iii) virus subtype, (iv) target gene, (v) siRNA location, (vi) GenBank accession, (vii) design algorithm, (viii) production method, (ix) siRNA concentration, (x) cell type, (xi) transfection method, (xii) incubation time, (xiii) PubMed ID, (xiv) object used (i.e. mRNA protein, virus load etc), (xv) efficacy, (xvi) efficacy assay (e.g. Western blot, PCR, plaque number, ELISA) and (xvii) references. Further, wherever available, extended information regarding alternative efficacy assays has also been provided. Architecture of the database is depicted in the <xref ref-type="fig" rid="gkr1147-F1">Figure 1</xref>
. Structure of each siRNA predicted by Mfold (<xref rid="gkr1147-B31" ref-type="bibr">31</xref>
) was also displayed in the data. In addition, we have also provided information of viral siRNA off-targets in human and the siRNA sequence matching with the reference viral genome sequences.
<fig id="gkr1147-F1" position="float"><label>Figure 1.</label>
<caption><p>VIRsiRNAdb database architecture.</p>
</caption>
<graphic xlink:href="gkr1147f1"></graphic>
</fig>
</p>
</sec>
<sec><title>Database statistics</title>
<p>VIRsiRNAdb database provides information of 1358 experimentally validated siRNAs pertaining to 42 important human viruses belonging to 19 different virus families and targeting as many as 150 different viral genome regions. For HBV, HCV, SARS and Coxsackievirus many genome regions were being targeted by siRNAs as given in <xref ref-type="table" rid="gkr1147-T1">Table 1</xref>
. The database entries contain siRNA experiments based on 71 different cell lines but Huh-7, 293T, MDCK, HepG2.2.15 and HeLa cell lines were mostly used (<xref ref-type="fig" rid="gkr1147-F2">Figure 2</xref>
a). In the database, 45% of the total siRNAs were highly effective with >70% inhibition efficacy and 9% siRNA have >90% efficacy. siRNAs (23%) have moderate efficacy of 50–70% whereas 32% of siRNAs were less effective with efficacy rating <50% (<xref ref-type="fig" rid="gkr1147-F2">Figure 2</xref>
b).
<fig id="gkr1147-F2" position="float"><label>Figure 2.</label>
<caption><p>Database statistics (<bold>a</bold>
) Cell line used (<bold>b</bold>
) siRNA efficacy (<bold>c</bold>
) siRNA sequence matching with reference viral genomes (<bold>d</bold>
) Positions of the escape mutations.</p>
</caption>
<graphic xlink:href="gkr1147f2"></graphic>
</fig>
<table-wrap id="gkr1147-T1" position="float"><label>Table 1.</label>
<caption><p>Number of siRNAs for 42 viruses and targeted genome regions</p>
</caption>
<table frame="hsides" rules="groups"><thead align="left"><tr><th rowspan="1" colspan="1">Virus</th>
<th rowspan="1" colspan="1">Target gene</th>
<th rowspan="1" colspan="1">No. of siRNAs</th>
<th rowspan="1" colspan="1">Virus</th>
<th rowspan="1" colspan="1">Target gene</th>
<th rowspan="1" colspan="1">No. of siRNAs</th>
</tr>
</thead>
<tbody align="left"><tr><td rowspan="1" colspan="1">BK polyomavirus</td>
<td rowspan="1" colspan="1">T-Ag(2)</td>
<td rowspan="1" colspan="1">2</td>
<td rowspan="1" colspan="1">Influenza A virus</td>
<td rowspan="1" colspan="1">M(33), NP(26), PB(19), PA(11), NS(6), C(1)</td>
<td rowspan="1" colspan="1">96</td>
</tr>
<tr><td rowspan="1" colspan="1">Chikungunya virus</td>
<td rowspan="1" colspan="1">E1(1), NSP3(1)</td>
<td rowspan="1" colspan="1">2</td>
<td rowspan="1" colspan="1">Influenza B virus</td>
<td rowspan="1" colspan="1">PB(33), NP(17), M(11), NS(10), PA(10)</td>
<td rowspan="1" colspan="1">81</td>
</tr>
<tr><td rowspan="1" colspan="1">Dengue virus [DENV]</td>
<td rowspan="1" colspan="1">E(6), NS5(6), 3′-UTR(5), 5′-UTR(2), C(1), NS3(1), PreM(1)</td>
<td rowspan="1" colspan="1">22</td>
<td rowspan="1" colspan="1">Japanese encephalitis virus [JE]</td>
<td rowspan="1" colspan="1">NS1(4), E(2)</td>
<td rowspan="1" colspan="1">6</td>
</tr>
<tr><td rowspan="1" colspan="1">Ebolavirus [EBOV]</td>
<td rowspan="1" colspan="1">ZNP(2), ZT(2), ZL(1)</td>
<td rowspan="1" colspan="1">5</td>
<td rowspan="1" colspan="1">John Cunningham virus [JCV]</td>
<td rowspan="1" colspan="1">T-Ag (1)</td>
<td rowspan="1" colspan="1">1</td>
</tr>
<tr><td rowspan="1" colspan="1">Encephalomyocarditis virus</td>
<td rowspan="1" colspan="1">EMCV-IRES(1)</td>
<td rowspan="1" colspan="1">1</td>
<td rowspan="1" colspan="1">Junín virus</td>
<td rowspan="1" colspan="1">Z(4)</td>
<td rowspan="1" colspan="1">4</td>
</tr>
<tr><td rowspan="1" colspan="1">Enterovirus [EV]</td>
<td rowspan="1" colspan="1">3D Pol(10), VP1(3), 2C(2), 3C pro(2), 5′NTR(2), 3′-UTR(1), MET-2C(1), VP2(1)</td>
<td rowspan="1" colspan="1">22</td>
<td rowspan="1" colspan="1">La Crosse virus</td>
<td rowspan="1" colspan="1">M(G2)(7), L(4), S(3)</td>
<td rowspan="1" colspan="1">14</td>
</tr>
<tr><td rowspan="1" colspan="1">Epstein–Barr virus [EBV]</td>
<td rowspan="1" colspan="1">EBNA1(25), LMP1(10), PR(4), BKRF3(2), LMP2A(1), Zta(1)</td>
<td rowspan="1" colspan="1">43</td>
<td rowspan="1" colspan="1">Lassa virus</td>
<td rowspan="1" colspan="1">GPC(1), L(1), NP(1), Z(1)</td>
<td rowspan="1" colspan="1">4</td>
</tr>
<tr><td rowspan="1" colspan="1">Hazara nairovirus</td>
<td rowspan="1" colspan="1">L(4), M(4), S(4)</td>
<td rowspan="1" colspan="1">12</td>
<td rowspan="1" colspan="1">Lymphocytic choriomeningitis virus</td>
<td rowspan="1" colspan="1">L(1), Z(1)</td>
<td rowspan="1" colspan="1">2</td>
</tr>
<tr><td rowspan="1" colspan="1">Hendra virus</td>
<td rowspan="1" colspan="1">N(2)</td>
<td rowspan="1" colspan="1">2</td>
<td rowspan="1" colspan="1">Marburg virus</td>
<td rowspan="1" colspan="1">VP30(2), NP(1)</td>
<td rowspan="1" colspan="1">3</td>
</tr>
<tr><td rowspan="1" colspan="1">Henipavirus</td>
<td rowspan="1" colspan="1">L(4), N(4)</td>
<td rowspan="1" colspan="1">8</td>
<td rowspan="1" colspan="1">Measles virus</td>
<td rowspan="1" colspan="1">N(16), L(8)</td>
<td rowspan="1" colspan="1">24</td>
</tr>
<tr><td rowspan="1" colspan="1">Hepatitis A virus [HAV]</td>
<td rowspan="1" colspan="1">2C(2), 3D(2), 3A(1), 3C(1)</td>
<td rowspan="1" colspan="1">6</td>
<td rowspan="1" colspan="1">Polio virus</td>
<td rowspan="1" colspan="1">Capsid(1), 5NC(1)</td>
<td rowspan="1" colspan="1">2</td>
</tr>
<tr><td rowspan="1" colspan="1">Hepatitis B virus [HBV]</td>
<td rowspan="1" colspan="1">S(60), X(48), C(25), P/S(24), P(17), C/P(11), ORF-C(3), ORF-S(3), P/X(3), NLS(2), PRE(2), preS/P(2), PA(1), PreS1(1), HBeAg(7)</td>
<td rowspan="1" colspan="1">227</td>
<td rowspan="1" colspan="1">Rabies</td>
<td rowspan="1" colspan="1">N(3)</td>
<td rowspan="1" colspan="1">3</td>
</tr>
<tr><td rowspan="1" colspan="1">Hepatitis C virus [HCV]</td>
<td rowspan="1" colspan="1">5′-UTR(38), 3′-UTR(26), NS5B(22), Core(19), E(11), NS3(8), E2(7), IRES (5′-UTR)(6), NS5A(3), NS4B(2), NAa(1), NS4A(1)</td>
<td rowspan="1" colspan="1">145</td>
<td rowspan="1" colspan="1">Reovirus</td>
<td rowspan="1" colspan="1">μNS(7), σNS(4), μ2(2)</td>
<td rowspan="1" colspan="1">13</td>
</tr>
<tr><td rowspan="1" colspan="1">Hepatitis delta virus [HDV]</td>
<td rowspan="1" colspan="1">Delta Ag(16)</td>
<td rowspan="1" colspan="1">16</td>
<td rowspan="1" colspan="1">Rotavirus</td>
<td rowspan="1" colspan="1">NSP5(2)</td>
<td rowspan="1" colspan="1">2</td>
</tr>
<tr><td rowspan="1" colspan="1">Hepatitis E virus [HEV]</td>
<td rowspan="1" colspan="1">ORF2(4), RdRp(4), Helicase(2), Replicase(2), 3CAE region(1)</td>
<td rowspan="1" colspan="1">13</td>
<td rowspan="1" colspan="1">SARS coronavirus</td>
<td rowspan="1" colspan="1">ORF9a, N-protein(31), ORF5, M-protein(23), ORF4, E-protein(22), ORF2, Spike(18), Replicase(16), RDRP(11), ORF1a(8), ORF1b(7), ORF3a(7), (6), 3A(3), NSP1(3), ORF7(3), 3′-UTR(2), 5′-UTR(1), Leader(1), TRS(1)</td>
<td rowspan="1" colspan="1">163</td>
</tr>
<tr><td rowspan="1" colspan="1">Herpes simplex virus [HSV]</td>
<td rowspan="1" colspan="1">U51(4), UL39(4), UL40(4), DNA polymerase(3), gD(3), UL29(3), UL5(3), Vp 16(3), gB(2), UL27(2), UL38(2), gE(1), K13(1), ORF75(1)</td>
<td rowspan="1" colspan="1">36</td>
<td rowspan="1" colspan="1">Semliki forest virus</td>
<td rowspan="1" colspan="1">Cold(7), Hot(7)</td>
<td rowspan="1" colspan="1">14</td>
</tr>
<tr><td rowspan="1" colspan="1">Human coxsackievirus [CV]</td>
<td rowspan="1" colspan="1">5′-UTR(29), 3D(25), 2A(6), VP1(6), 1B(5), 1D(5), 2C(5), 1C(4), 3C(3), Rev(3), 3′-UTR(2), RdRP(2), MET-2C(2), 5′NTR(2), 3A(1), AUG start Codon region(1), POL(1)</td>
<td rowspan="1" colspan="1">103</td>
<td rowspan="1" colspan="1">Sendai VIRUS</td>
<td rowspan="1" colspan="1">HN(5)</td>
<td rowspan="1" colspan="1">5</td>
</tr>
<tr><td rowspan="1" colspan="1">Human metapneumovirus</td>
<td rowspan="1" colspan="1">L(26), N(11), M(9), F(8), P(4)</td>
<td rowspan="1" colspan="1">58</td>
<td rowspan="1" colspan="1">St. Louis encephalitis [SLE]</td>
<td rowspan="1" colspan="1">E(1), C(2), NS5(2)</td>
<td rowspan="1" colspan="1">5</td>
</tr>
<tr><td rowspan="1" colspan="1">Human papillomavirus [HPV]</td>
<td rowspan="1" colspan="1">E6(42), E7(39), E6/E7(8)</td>
<td rowspan="1" colspan="1">89</td>
<td rowspan="1" colspan="1">Vaccinia</td>
<td rowspan="1" colspan="1">E3L(4)</td>
<td rowspan="1" colspan="1">4</td>
</tr>
<tr><td rowspan="1" colspan="1">Human respiratory syncytial virus [HRSV]</td>
<td rowspan="1" colspan="1">NS1(4), P(4), NS2(1)</td>
<td rowspan="1" colspan="1">9</td>
<td rowspan="1" colspan="1">West Nile virus [WNV]</td>
<td rowspan="1" colspan="1">E(18), NS5(17), Core(7), C(4), NS1(4), NS4B(4), PrM/M(3), 3′-UTR(2), NS3(2), CAP(1), NS2A(1), NS4A/B(1)</td>
<td rowspan="1" colspan="1">64</td>
</tr>
<tr><td rowspan="1" colspan="1">Human rhinovirus</td>
<td rowspan="1" colspan="1">3D(4), 2C(3), 5-UTR(3), VP3(3), 3C(2), VP1(2), VP2(2), 2A(1), 3A(1), VP4(1)</td>
<td rowspan="1" colspan="1">22</td>
<td rowspan="1" colspan="1">Yellow fever virus</td>
<td rowspan="1" colspan="1">NS5(2), E(1), NS1(1)</td>
<td rowspan="1" colspan="1">4</td>
</tr>
</tbody>
</table>
</table-wrap>
</p>
<p>One of the major hindrances in RNAi based therapeutics is the lack of siRNA specificity. Besides, directly affecting the expression of the desired genes, a siRNA may affect regulation of unintended transcripts which possess complementarity to the siRNA sequence. siRNA off-target effect was initially reported in 2003 (<xref rid="gkr1147-B32" ref-type="bibr">32</xref>
) and later Amanda Birmingham <italic>et al</italic>
. (<xref rid="gkr1147-B33" ref-type="bibr">33</xref>
) reported that off-targeting is associated with the presence of one or more perfect 3′ untranslated region (UTR) matches with the hexamer or heptamer seed region (positions 2–7 or 2–8) of the antisense strand of the siRNA. Seed based siRNA off-target was experimentally demonstrated by others also (<xref rid="gkr1147-B34" ref-type="bibr">34</xref>
,<xref rid="gkr1147-B35" ref-type="bibr">35</xref>
). The impact of non-specific siRNA off-target effect in therapeutic application was further reviewed (<xref rid="gkr1147-B36" ref-type="bibr">36</xref>
).</p>
<p>We have predicted the off-targets in human for all the siRNAs present in our database, using three algorithms: (i) BLAST (<xref rid="gkr1147-B37" ref-type="bibr">37</xref>
), (ii) Seed Locator (<xref rid="gkr1147-B33" ref-type="bibr">33</xref>
) and (iii) SpecificityServer (<xref rid="gkr1147-B38" ref-type="bibr">38</xref>
). Result outputs of each algorithm are given against respective siRNA record as link under off-target column. BLAST algorithm was commonly used to detect possible off-target effects of a siRNA by searching it against the human Unigene or transcriptome database (<xref rid="gkr1147-B28" ref-type="bibr">28</xref>
). We have also used BLAST (<xref rid="gkr1147-B37" ref-type="bibr">37</xref>
) with −<italic>e</italic>
1000; −<italic>q</italic>
−4; −<italic>r</italic>
5 parameters and found that around 13% of siRNA having off-targets in the human genome. Seed Locator output include total genes with at least one seed match and multiple seed matches in the 3′-UTR. Finally, results of SpecificityServer which is designed to identify potential non-specific matches to siRNA showed that 113 siRNAs are not specific for both siRNA strands while 101 siRNA have off-targets for the sense strand and remaining does not have any off-target.</p>
<p>As we know that viruses exhibit greater genetic variability, therefore it is important to know that in how many viral genome sequences, siRNA sequence is matching. This analysis is helpful for users in selecting such siRNA which is having high matching with maximum reference viral strains. Significance of selection of conserved regions targeted by siRNA in HIV-1 has been discussed by Naito <italic>et al.</italic>
(<xref rid="gkr1147-B39" ref-type="bibr">39</xref>
,<xref rid="gkr1147-B40" ref-type="bibr">40</xref>
). We have checked the siRNA sequence matching with the reference viral genome sequences available at NCBI. For this purpose, we have used ALIGN0 algorithm (<xref rid="gkr1147-B41" ref-type="bibr">41</xref>
), which computes the alignment of two DNA sequences without penalizing for end-gaps. Pie chart result displayed the number of nucleotide differences or mismatches (0, 1, 2, 3, >3) between of each siRNA and respective viral reference genome sequences in the alignment. Cumulative results of all the siRNA showed that 2% of siRNAs were fully (100%) matching with respective viral genome sequences and 16% matched with 90–99% viral genomes while 61% were having <50% matching as shown in <xref ref-type="fig" rid="gkr1147-F2">Figure 2</xref>
c.</p>
<p>There are reports of escape mutants generated by the virus in the siRNA target site to overcome the effect of RNAi. These escape mutations in the target sequence decreases the potency of siRNA gene silencing (<xref rid="gkr1147-B42" ref-type="bibr">42</xref>
). Wilson (<xref rid="gkr1147-B43" ref-type="bibr">43</xref>
) observed maximum escape mutations at 12th and 18th residues for HCV NS5B while Konishi (<xref rid="gkr1147-B44" ref-type="bibr">44</xref>
) reported appreciable mutation at the 15th residue for HCV NS5A gene. In another study, Jun (<xref rid="gkr1147-B45" ref-type="bibr">45</xref>
) recorded changes in Coxsackie virus at positions 10 and 13. We have collected such 57 siRNA escape sequences having 52 substitutions; 2 deletions; 1 insertion and 2 substitution/deletion mutations. Position of these escape substitutions mutations among 57 escape sequences are shown in <xref ref-type="fig" rid="gkr1147-F2">Figure 2</xref>
d.</p>
</sec>
<sec><title>Tools</title>
<p>Viral siRNA database allows the users to take advantage of useful tools like siTarAlign, siRNAmap and siRNAblast. siTarAlign aligns the siRNA sequence with the respective virus/family reference genomes sequences using either BLAST (<xref rid="gkr1147-B37" ref-type="bibr">37</xref>
) or Smith–Waterman algorithm from EMBOSS suite (<xref rid="gkr1147-B46" ref-type="bibr">46</xref>
) The output shown below displays a list of flaviviruses and influenza A viruses targeted by respective siRNA (<xref ref-type="fig" rid="gkr1147-F3">Figure 3</xref>
). Viral/family reference genomes were taken from the NCBI viral genome resources as summarized in the <ext-link ext-link-type="uri" xlink:href="http://nar.oxfordjournals.org/cgi/content/full/gkr1147/DC1">Supplementary Table S2</ext-link>
. In siTarAlign, user defined viral genome sequences can also be uploaded to align the siRNA sequence with user provided sequences also.
<fig id="gkr1147-F3" position="float"><label>Figure 3.</label>
<caption><p>siTarAlign output screenshot showing the alignment of siRNA sequence with (<bold>a</bold>
) family (<bold>b</bold>
) virus reference genome sequences.</p>
</caption>
<graphic xlink:href="gkr1147f3"></graphic>
</fig>
</p>
<p>The ‘siRNAmap’ is a simple tool to display the perfectly matching siRNA available in our database to the user provided viral sequence. So, it helps the user to know that against the user provided viral sequence, how many siRNAs are available in VIRsiRNAdb. Additionally, the siRNAblast allows alignment of a user provided siRNA sequence against all the siRNA sequences available in our database. This helps the user to confirm whether a given siRNA sequence or similar one has already been reported or not.</p>
</sec>
<sec><title>Data retrieval</title>
<p>It is possible to perform a quick search based on various database fields i.e. Virus name, siRNA sequence, target region, cell line and Pubmed ID. We have included a separate search option to retrieve siRNA with efficacy; greater than, equal to and lower than for a given value. Database also has qualitative efficacy of some siRNAs (where numerical values were not available) in three categories viz. ‘High’ (>70%), ‘Medium’ (50–70%) and ‘Low’ (<50%). The efficacy search will also fetch siRNAs with qualitative efficacies.</p>
<p>In the search output we have implemented the sorting and filtering functions. By clicking the heading of the given field, user can sort the displayed data. Simultaneously, by entering the desired keyword in the designated field, user can filter the siRNA data. Multiple filtering can be accomplished by entering desired keyword in different fields one after another. ‘Advanced Search page’ allows for more flexible queries using logical operators (AND, OR). These options enable the user to readily find appropriate siRNA data. External links pointing to the GenBank accession of the siRNA target sequence, Pubmed ID and International Committee on Taxonomy of Viruses (ICTV) are given for each siRNA record.</p>
</sec>
<sec><title>Data submission</title>
<p>Authors generating experimental viral siRNA data are encouraged to submit the data directly into viral siRNA database. For this purpose, a web form for data submission is provided. Submitted information will be included in the database update after ascertaining its authenticity.</p>
</sec>
<sec><title>Implementation</title>
<p>VIRsiRNAdb database is implemented on Red Hat Linux with MySQL (5.0.51b) and Apache (2.2.17) in back-end and front-end of web interface is implemented with PHP (5.2.14).</p>
</sec>
<sec><title>Future developments</title>
<p>As increasing number of articles are being published in the area of viral RNAi, therefore, in future our main priority would be to update the existing viral siRNA data as well as to include siRNA information for new viruses once appropriate data is available. We would also include virus specific siRNA design tool to further help the researchers.</p>
</sec>
</sec>
<sec><title>SUPPLEMENTARY DATA</title>
<p><ext-link ext-link-type="uri" xlink:href="http://nar.oxfordjournals.org/cgi/content/full/gkr1147/DC1">Supplementary Data</ext-link>
are available at NAR Online: Supplementary Tables 1 and 2.</p>
</sec>
<sec><title>FUNDING</title>
<p><funding-source>Council of Scientific and Industrial Research, and Department of Biotechnology, Government of India</funding-source>
. Funding for open access charge: <funding-source>Institute of Microbial Technology (CSIR), Sector 39-A, Chandigarh, India</funding-source>
.</p>
<p><italic>Conflict of interest statement</italic>
. None declared.</p>
</sec>
</body>
<back><ref-list><title>REFERENCES</title>
<ref id="gkr1147-B1"><label>1</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Nichol</surname>
<given-names>ST</given-names>
</name>
<name><surname>Arikawa</surname>
<given-names>J</given-names>
</name>
<name><surname>Kawaoka</surname>
<given-names>Y</given-names>
</name>
</person-group>
<article-title>Emerging viral diseases</article-title>
<source>Proc. Natl Acad. Sci. USA</source>
<year>2000</year>
<volume>97</volume>
<fpage>12411</fpage>
<lpage>12412</lpage>
<pub-id pub-id-type="pmid">11035785</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B2"><label>2</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Duffy</surname>
<given-names>S</given-names>
</name>
<name><surname>Shackelton</surname>
<given-names>LA</given-names>
</name>
<name><surname>Holmes</surname>
<given-names>EC</given-names>
</name>
</person-group>
<article-title>Rates of evolutionary change in viruses: patterns and determinants</article-title>
<source>Nat. Rev. Genetics</source>
<year>2008</year>
<volume>9</volume>
<fpage>267</fpage>
<lpage>276</lpage>
<pub-id pub-id-type="pmid">18319742</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B3"><label>3</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Arbuthnot</surname>
<given-names>P</given-names>
</name>
</person-group>
<article-title>Harnessing RNA interference for the treatment of viral infections</article-title>
<source>Drug News Perspect.</source>
<year>2010</year>
<volume>23</volume>
<fpage>341</fpage>
<lpage>350</lpage>
<pub-id pub-id-type="pmid">20697601</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B4"><label>4</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Haasnoot</surname>
<given-names>J</given-names>
</name>
<name><surname>Westerhout</surname>
<given-names>EM</given-names>
</name>
<name><surname>Berkhout</surname>
<given-names>B</given-names>
</name>
</person-group>
<article-title>RNA interference against viruses: strike and counterstrike</article-title>
<source>Nat. Biotechnol.</source>
<year>2007</year>
<volume>25</volume>
<fpage>1435</fpage>
<lpage>1443</lpage>
<pub-id pub-id-type="pmid">18066040</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B5"><label>5</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Angaji</surname>
<given-names>SA</given-names>
</name>
<name><surname>Hedayati</surname>
<given-names>SS</given-names>
</name>
<name><surname>Poor</surname>
<given-names>RH</given-names>
</name>
<name><surname>Madani</surname>
<given-names>S</given-names>
</name>
<name><surname>Poor</surname>
<given-names>SS</given-names>
</name>
<name><surname>Panahi</surname>
<given-names>S</given-names>
</name>
</person-group>
<article-title>Application of RNA interference in treating human diseases</article-title>
<source>J. Genet.</source>
<year>2010</year>
<volume>89</volume>
<fpage>527</fpage>
<lpage>537</lpage>
<pub-id pub-id-type="pmid">21273705</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B6"><label>6</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Davidson</surname>
<given-names>BL</given-names>
</name>
<name><surname>McCray</surname>
<given-names>PB</given-names>
<suffix>Jr</suffix>
</name>
</person-group>
<article-title>Current prospects for RNA interference-based therapies</article-title>
<source>Nat. Rev. Genet.</source>
<year>2011</year>
<volume>12</volume>
<fpage>329</fpage>
<lpage>340</lpage>
<pub-id pub-id-type="pmid">21499294</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B7"><label>7</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Fire</surname>
<given-names>A</given-names>
</name>
<name><surname>Xu</surname>
<given-names>S</given-names>
</name>
<name><surname>Montgomery</surname>
<given-names>MK</given-names>
</name>
<name><surname>Kostas</surname>
<given-names>SA</given-names>
</name>
<name><surname>Driver</surname>
<given-names>SE</given-names>
</name>
<name><surname>Mello</surname>
<given-names>CC</given-names>
</name>
</person-group>
<article-title>Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans</article-title>
<source>Nature</source>
<year>1998</year>
<volume>391</volume>
<fpage>806</fpage>
<lpage>811</lpage>
<pub-id pub-id-type="pmid">9486653</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B8"><label>8</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Woessmann</surname>
<given-names>W</given-names>
</name>
<name><surname>Damm-Welk</surname>
<given-names>C</given-names>
</name>
<name><surname>Fuchs</surname>
<given-names>U</given-names>
</name>
<name><surname>Borkhardt</surname>
<given-names>A</given-names>
</name>
</person-group>
<article-title>RNA interference: new mechanisms for targeted treatment? <italic>Rev</italic>
</article-title>
<source>Clin. Exp. Hematol.</source>
<year>2003</year>
<volume>7</volume>
<fpage>270</fpage>
<lpage>291</lpage>
</element-citation>
</ref>
<ref id="gkr1147-B9"><label>9</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Filipowicz</surname>
<given-names>W</given-names>
</name>
</person-group>
<article-title>RNAi: the nuts and bolts of the RISC machine</article-title>
<source>Cell</source>
<year>2005</year>
<volume>122</volume>
<fpage>17</fpage>
<lpage>20</lpage>
<pub-id pub-id-type="pmid">16009129</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B10"><label>10</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Haasnoot</surname>
<given-names>J</given-names>
</name>
<name><surname>Berkhout</surname>
<given-names>B</given-names>
</name>
</person-group>
<article-title>Nucleic acids-based therapeutics in the battle against pathogenic viruses</article-title>
<source>Handb. Exp. Pharmacol.</source>
<year>2009</year>
<volume>189</volume>
<fpage>243</fpage>
<lpage>263</lpage>
<pub-id pub-id-type="pmid">19048203</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B11"><label>11</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Leonard</surname>
<given-names>JN</given-names>
</name>
<name><surname>Schaffer</surname>
<given-names>DV</given-names>
</name>
</person-group>
<article-title>Antiviral RNAi therapy: emerging approaches for hitting a moving target</article-title>
<source>Gene Ther.</source>
<year>2006</year>
<volume>13</volume>
<fpage>532</fpage>
<lpage>540</lpage>
<pub-id pub-id-type="pmid">16177819</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B12"><label>12</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Ge</surname>
<given-names>Q</given-names>
</name>
<name><surname>McManus</surname>
<given-names>MT</given-names>
</name>
<name><surname>Nguyen</surname>
<given-names>T</given-names>
</name>
<name><surname>Shen</surname>
<given-names>CH</given-names>
</name>
<name><surname>Sharp</surname>
<given-names>PA</given-names>
</name>
<name><surname>Eisen</surname>
<given-names>HN</given-names>
</name>
<name><surname>Chen</surname>
<given-names>J</given-names>
</name>
</person-group>
<article-title>RNA interference of influenza virus production by directly targeting mRNA for degradation and indirectly inhibiting all viral RNA transcription</article-title>
<source>Proc. Natl Acad. Sci. USA</source>
<year>2003</year>
<volume>100</volume>
<fpage>2718</fpage>
<lpage>2723</lpage>
<pub-id pub-id-type="pmid">12594334</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B13"><label>13</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Konishi</surname>
<given-names>M</given-names>
</name>
<name><surname>Wu</surname>
<given-names>CH</given-names>
</name>
<name><surname>Wu</surname>
<given-names>GY</given-names>
</name>
</person-group>
<article-title>Inhibition of HBV replication by siRNA in a stable HBV-producing cell line</article-title>
<source>Hepatology</source>
<year>2003</year>
<volume>38</volume>
<fpage>842</fpage>
<lpage>850</lpage>
<pub-id pub-id-type="pmid">14512871</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B14"><label>14</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Shi</surname>
<given-names>Y</given-names>
</name>
<name><surname>Yang</surname>
<given-names>DH</given-names>
</name>
<name><surname>Xiong</surname>
<given-names>J</given-names>
</name>
<name><surname>Jia</surname>
<given-names>J</given-names>
</name>
<name><surname>Huang</surname>
<given-names>B</given-names>
</name>
<name><surname>Jin</surname>
<given-names>YX</given-names>
</name>
</person-group>
<article-title>Inhibition of genes expression of SARS coronavirus by synthetic small interfering RNAs</article-title>
<source>Cell Res.</source>
<year>2005</year>
<volume>15</volume>
<fpage>193</fpage>
<lpage>200</lpage>
<pub-id pub-id-type="pmid">15780182</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B15"><label>15</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Stevenson</surname>
<given-names>M</given-names>
</name>
</person-group>
<article-title>Therapeutic potential of RNA interference</article-title>
<source>N. Engl. J. Med.</source>
<year>2004</year>
<volume>351</volume>
<fpage>1772</fpage>
<lpage>1777</lpage>
<pub-id pub-id-type="pmid">15496626</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B16"><label>16</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Tripp</surname>
<given-names>RA</given-names>
</name>
<name><surname>Tompkins</surname>
<given-names>SM</given-names>
</name>
</person-group>
<article-title>Therapeutic applications of RNAi for silencing virus replication</article-title>
<source>Methods Mol. Biol.</source>
<year>2009</year>
<volume>555</volume>
<fpage>43</fpage>
<lpage>61</lpage>
<pub-id pub-id-type="pmid">19495687</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B17"><label>17</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Chen</surname>
<given-names>Y</given-names>
</name>
<name><surname>Mahato</surname>
<given-names>RI</given-names>
</name>
</person-group>
<article-title>siRNA pool targeting different sites of human hepatitis B surface antigen efficiently inhibits HBV infection</article-title>
<source>J. Drug Target.</source>
<year>2008</year>
<volume>16</volume>
<fpage>140</fpage>
<lpage>148</lpage>
<pub-id pub-id-type="pmid">18274934</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B18"><label>18</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>ter Brake</surname>
<given-names>O</given-names>
</name>
<name><surname>t Hooft</surname>
<given-names>K</given-names>
</name>
<name><surname>Liu</surname>
<given-names>YP</given-names>
</name>
<name><surname>Centlivre</surname>
<given-names>M</given-names>
</name>
<name><surname>von Eije</surname>
<given-names>KJ</given-names>
</name>
<name><surname>Berkhout</surname>
<given-names>B</given-names>
</name>
</person-group>
<article-title>Lentiviral vector design for multiple shRNA expression and durable HIV-1 inhibition</article-title>
<source>Mol. Ther.</source>
<year>2008</year>
<volume>16</volume>
<fpage>557</fpage>
<lpage>564</lpage>
<pub-id pub-id-type="pmid">18180777</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B19"><label>19</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Vaishnaw</surname>
<given-names>AK</given-names>
</name>
<name><surname>Gollob</surname>
<given-names>J</given-names>
</name>
<name><surname>Gamba-Vitalo</surname>
<given-names>C</given-names>
</name>
<name><surname>Hutabarat</surname>
<given-names>R</given-names>
</name>
<name><surname>Sah</surname>
<given-names>D</given-names>
</name>
<name><surname>Meyers</surname>
<given-names>R</given-names>
</name>
<name><surname>de Fougerolles</surname>
<given-names>T</given-names>
</name>
<name><surname>Maraganore</surname>
<given-names>J</given-names>
</name>
</person-group>
<article-title>A status report on RNAi therapeutics</article-title>
<source>Silence</source>
<year>2010</year>
<volume>1</volume>
<fpage>14</fpage>
<pub-id pub-id-type="pmid">20615220</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B20"><label>20</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Lopez-Fraga</surname>
<given-names>M</given-names>
</name>
<name><surname>Martinez</surname>
<given-names>T</given-names>
</name>
<name><surname>Jimenez</surname>
<given-names>A</given-names>
</name>
</person-group>
<article-title>RNA interference technologies and therapeutics: from basic research to products</article-title>
<source>Biodrugs</source>
<year>2009</year>
<volume>23</volume>
<fpage>305</fpage>
<lpage>332</lpage>
<pub-id pub-id-type="pmid">19754220</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B21"><label>21</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Shah</surname>
<given-names>PS</given-names>
</name>
<name><surname>Schaffer</surname>
<given-names>DV</given-names>
</name>
</person-group>
<article-title>Antiviral RNAi: translating science towards therapeutic success</article-title>
<source>Pharm. Res</source>
<year>2011</year>
<comment>August 9 (doi:10.1007/s11095-011-0549-8; epub ahead of print)</comment>
</element-citation>
</ref>
<ref id="gkr1147-B22"><label>22</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>DeVincenzo</surname>
<given-names>J</given-names>
</name>
<name><surname>Lambkin-Williams</surname>
<given-names>R</given-names>
</name>
<name><surname>Wilkinson</surname>
<given-names>T</given-names>
</name>
<name><surname>Cehelsky</surname>
<given-names>J</given-names>
</name>
<name><surname>Nochur</surname>
<given-names>S</given-names>
</name>
<name><surname>Walsh</surname>
<given-names>E</given-names>
</name>
<name><surname>Meyers</surname>
<given-names>R</given-names>
</name>
<name><surname>Gollob</surname>
<given-names>J</given-names>
</name>
<name><surname>Vaishnaw</surname>
<given-names>A</given-names>
</name>
</person-group>
<article-title>A randomized, double-blind, placebo-controlled study of an RNAi-based therapy directed against respiratory syncytial virus</article-title>
<source>Proc. Natl Acad. Sci. USA</source>
<year>2010</year>
<volume>107</volume>
<fpage>8800</fpage>
<lpage>8805</lpage>
<pub-id pub-id-type="pmid">20421463</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B23"><label>23</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Haussecker</surname>
<given-names>D</given-names>
</name>
</person-group>
<article-title>The business of RNAi therapeutics</article-title>
<source>Hum. Gene Ther.</source>
<year>2008</year>
<volume>19</volume>
<fpage>451</fpage>
<lpage>462</lpage>
<pub-id pub-id-type="pmid">18435603</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B24"><label>24</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Lanford</surname>
<given-names>RE</given-names>
</name>
<name><surname>Hildebrandt-Eriksen</surname>
<given-names>ES</given-names>
</name>
<name><surname>Petri</surname>
<given-names>A</given-names>
</name>
<name><surname>Persson</surname>
<given-names>R</given-names>
</name>
<name><surname>Lindow</surname>
<given-names>M</given-names>
</name>
<name><surname>Munk</surname>
<given-names>ME</given-names>
</name>
<name><surname>Kauppinen</surname>
<given-names>S</given-names>
</name>
<name><surname>Orum</surname>
<given-names>H</given-names>
</name>
</person-group>
<article-title>Therapeutic silencing of microRNA-122 in primates with chronic hepatitis C virus infection</article-title>
<source>Science</source>
<year>2010</year>
<volume>327</volume>
<fpage>198</fpage>
<lpage>201</lpage>
<pub-id pub-id-type="pmid">19965718</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B25"><label>25</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>DiGiusto</surname>
<given-names>DL</given-names>
</name>
<name><surname>Krishnan</surname>
<given-names>A</given-names>
</name>
<name><surname>Li</surname>
<given-names>L</given-names>
</name>
<name><surname>Li</surname>
<given-names>H</given-names>
</name>
<name><surname>Li</surname>
<given-names>S</given-names>
</name>
<name><surname>Rao</surname>
<given-names>A</given-names>
</name>
<name><surname>Mi</surname>
<given-names>S</given-names>
</name>
<name><surname>Yam</surname>
<given-names>P</given-names>
</name>
<name><surname>Stinson</surname>
<given-names>S</given-names>
</name>
<name><surname>Kalos</surname>
<given-names>M</given-names>
</name>
<etal></etal>
</person-group>
<article-title>RNA-based gene therapy for HIV with lentiviral vector-modified CD34(+) cells in patients undergoing transplantation for AIDS-related lymphoma</article-title>
<source>Sci. Transl. Med.</source>
<year>2010</year>
<volume>2</volume>
<fpage>36ra43</fpage>
</element-citation>
</ref>
<ref id="gkr1147-B26"><label>26</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Tyagi</surname>
<given-names>A</given-names>
</name>
<name><surname>Ahmed</surname>
<given-names>F</given-names>
</name>
<name><surname>Thakur</surname>
<given-names>N</given-names>
</name>
<name><surname>Sharma</surname>
<given-names>A</given-names>
</name>
<name><surname>Raghava</surname>
<given-names>GPS</given-names>
</name>
<name><surname>Kumar</surname>
<given-names>M</given-names>
</name>
</person-group>
<article-title>HIVsirDB: A Database of HIV Inhibiting siRNAs</article-title>
<source>PLoS One</source>
<year>2011</year>
<volume>6</volume>
<fpage>e25917</fpage>
<pub-id pub-id-type="pmid">22022467</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B27"><label>27</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Truss</surname>
<given-names>M</given-names>
</name>
<name><surname>Swat</surname>
<given-names>M</given-names>
</name>
<name><surname>Kielbasa</surname>
<given-names>SM</given-names>
</name>
<name><surname>Schafer</surname>
<given-names>R</given-names>
</name>
<name><surname>Herzel</surname>
<given-names>H</given-names>
</name>
<name><surname>Hagemeier</surname>
<given-names>C</given-names>
</name>
</person-group>
<article-title>HuSiDa–the human siRNA database: an open-access database for published functional siRNA sequences and technical details of efficient transfer into recipient cells</article-title>
<source>Nucleic Acids Res.</source>
<year>2005</year>
<volume>33</volume>
<fpage>D108</fpage>
<lpage>D111</lpage>
<pub-id pub-id-type="pmid">15608157</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B28"><label>28</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Chalk</surname>
<given-names>AM</given-names>
</name>
<name><surname>Warfinge</surname>
<given-names>RE</given-names>
</name>
<name><surname>Georgii-Hemming</surname>
<given-names>P</given-names>
</name>
<name><surname>Sonnhammer</surname>
<given-names>EL</given-names>
</name>
</person-group>
<article-title>siRNAdb: a database of siRNA sequences</article-title>
<source>Nucleic Acids Res.</source>
<year>2005</year>
<volume>33</volume>
<fpage>D131</fpage>
<lpage>D134</lpage>
<pub-id pub-id-type="pmid">15608162</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B29"><label>29</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Ren</surname>
<given-names>Y</given-names>
</name>
<name><surname>Gong</surname>
<given-names>W</given-names>
</name>
<name><surname>Xu</surname>
<given-names>Q</given-names>
</name>
<name><surname>Zheng</surname>
<given-names>X</given-names>
</name>
<name><surname>Lin</surname>
<given-names>D</given-names>
</name>
<name><surname>Wang</surname>
<given-names>Y</given-names>
</name>
<name><surname>Li</surname>
<given-names>T</given-names>
</name>
</person-group>
<article-title>siRecords: an extensive database of mammalian siRNAs with efficacy ratings</article-title>
<source>Bioinformatics</source>
<year>2006</year>
<volume>22</volume>
<fpage>1027</fpage>
<lpage>1028</lpage>
<pub-id pub-id-type="pmid">16443930</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B30"><label>30</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Dash</surname>
<given-names>R</given-names>
</name>
<name><surname>Moharana</surname>
<given-names>SS</given-names>
</name>
<name><surname>Reddy</surname>
<given-names>AS</given-names>
</name>
<name><surname>Sastry</surname>
<given-names>GM</given-names>
</name>
<name><surname>Sastry</surname>
<given-names>GN</given-names>
</name>
</person-group>
<article-title>DSTHO: database of siRNAs targeted at human oncogenes: a statistical analysis</article-title>
<source>Int. J. Biol. Macromol.</source>
<year>2006</year>
<volume>38</volume>
<fpage>65</fpage>
<lpage>69</lpage>
<pub-id pub-id-type="pmid">16448692</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B31"><label>31</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Zuker</surname>
<given-names>M</given-names>
</name>
</person-group>
<article-title>Mfold web server for nucleic acid folding and hybridization prediction</article-title>
<source>Nucleic Acids Res.</source>
<year>2003</year>
<volume>31</volume>
<fpage>3406</fpage>
<lpage>3415</lpage>
<pub-id pub-id-type="pmid">12824337</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B32"><label>32</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Jackson</surname>
<given-names>AL</given-names>
</name>
<name><surname>Bartz</surname>
<given-names>SR</given-names>
</name>
<name><surname>Schelter</surname>
<given-names>J</given-names>
</name>
<name><surname>Kobayashi</surname>
<given-names>SV</given-names>
</name>
<name><surname>Burchard</surname>
<given-names>J</given-names>
</name>
<name><surname>Mao</surname>
<given-names>M</given-names>
</name>
<name><surname>Li</surname>
<given-names>B</given-names>
</name>
<name><surname>Cavet</surname>
<given-names>G</given-names>
</name>
<name><surname>Linsley</surname>
<given-names>PS</given-names>
</name>
</person-group>
<article-title>Expression profiling reveals off-target gene regulation by RNAi</article-title>
<source>Nat. Biotechnol.</source>
<year>2003</year>
<volume>21</volume>
<fpage>635</fpage>
<lpage>637</lpage>
<pub-id pub-id-type="pmid">12754523</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B33"><label>33</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Birmingham</surname>
<given-names>A</given-names>
</name>
<name><surname>Anderson</surname>
<given-names>EM</given-names>
</name>
<name><surname>Reynolds</surname>
<given-names>A</given-names>
</name>
<name><surname>Ilsley-Tyree</surname>
<given-names>D</given-names>
</name>
<name><surname>Leake</surname>
<given-names>D</given-names>
</name>
<name><surname>Fedorov</surname>
<given-names>Y</given-names>
</name>
<name><surname>Baskerville</surname>
<given-names>S</given-names>
</name>
<name><surname>Maksimova</surname>
<given-names>E</given-names>
</name>
<name><surname>Robinson</surname>
<given-names>K</given-names>
</name>
<name><surname>Karpilow</surname>
<given-names>J</given-names>
</name>
<etal></etal>
</person-group>
<article-title>3′ UTR seed matches, but not overall identity, are associated with RNAi off-targets</article-title>
<source>Nat. Methods</source>
<year>2006</year>
<volume>3</volume>
<fpage>199</fpage>
<lpage>204</lpage>
<pub-id pub-id-type="pmid">16489337</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B34"><label>34</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Anderson</surname>
<given-names>EM</given-names>
</name>
<name><surname>Birmingham</surname>
<given-names>A</given-names>
</name>
<name><surname>Baskerville</surname>
<given-names>S</given-names>
</name>
<name><surname>Reynolds</surname>
<given-names>A</given-names>
</name>
<name><surname>Maksimova</surname>
<given-names>E</given-names>
</name>
<name><surname>Leake</surname>
<given-names>D</given-names>
</name>
<name><surname>Fedorov</surname>
<given-names>Y</given-names>
</name>
<name><surname>Karpilow</surname>
<given-names>J</given-names>
</name>
<name><surname>Khvorova</surname>
<given-names>A</given-names>
</name>
</person-group>
<article-title>Experimental validation of the importance of seed complement frequency to siRNA specificity</article-title>
<source>RNA</source>
<year>2008</year>
<volume>14</volume>
<fpage>853</fpage>
<lpage>861</lpage>
<pub-id pub-id-type="pmid">18367722</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B35"><label>35</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Ui-Tei</surname>
<given-names>K</given-names>
</name>
<name><surname>Naito</surname>
<given-names>Y</given-names>
</name>
<name><surname>Nishi</surname>
<given-names>K</given-names>
</name>
<name><surname>Juni</surname>
<given-names>A</given-names>
</name>
<name><surname>Saigo</surname>
<given-names>K</given-names>
</name>
</person-group>
<article-title>Thermodynamic stability and Watson-Crick base pairing in the seed duplex are major determinants of the efficiency of the siRNA-based off-target effect</article-title>
<source>Nucleic Acids Res.</source>
<year>2008</year>
<volume>36</volume>
<fpage>7100</fpage>
<lpage>7109</lpage>
<pub-id pub-id-type="pmid">18988625</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B36"><label>36</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Jackson</surname>
<given-names>AL</given-names>
</name>
<name><surname>Linsley</surname>
<given-names>PS</given-names>
</name>
</person-group>
<article-title>Recognizing and avoiding siRNA off-target effects for target identification and therapeutic application</article-title>
<source>Nature reviews. Drug Discov.</source>
<year>2010</year>
<volume>9</volume>
<fpage>57</fpage>
<lpage>67</lpage>
</element-citation>
</ref>
<ref id="gkr1147-B37"><label>37</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Altschul</surname>
<given-names>SF</given-names>
</name>
<name><surname>Gish</surname>
<given-names>W</given-names>
</name>
<name><surname>Miller</surname>
<given-names>W</given-names>
</name>
<name><surname>Myers</surname>
<given-names>EW</given-names>
</name>
<name><surname>Lipman</surname>
<given-names>DJ</given-names>
</name>
</person-group>
<article-title>Basic local alignment search tool</article-title>
<source>J. Mol. Biol.</source>
<year>1990</year>
<volume>215</volume>
<fpage>403</fpage>
<lpage>410</lpage>
<pub-id pub-id-type="pmid">2231712</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B38"><label>38</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Chalk</surname>
<given-names>AM</given-names>
</name>
<name><surname>Sonnhammer</surname>
<given-names>EL</given-names>
</name>
</person-group>
<article-title>siRNA specificity searching incorporating mismatch tolerance data</article-title>
<source>Bioinformatics</source>
<year>2008</year>
<volume>24</volume>
<fpage>1316</fpage>
<lpage>1317</lpage>
<pub-id pub-id-type="pmid">18397893</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B39"><label>39</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Naito</surname>
<given-names>Y</given-names>
</name>
<name><surname>Ui-Tei</surname>
<given-names>K</given-names>
</name>
<name><surname>Nishikawa</surname>
<given-names>T</given-names>
</name>
<name><surname>Takebe</surname>
<given-names>Y</given-names>
</name>
<name><surname>Saigo</surname>
<given-names>K</given-names>
</name>
</person-group>
<article-title>siVirus: web-based antiviral siRNA design software for highly divergent viral sequences</article-title>
<source>Nucleic Acids Res.</source>
<year>2006</year>
<volume>34</volume>
<fpage>W448</fpage>
<lpage>W450</lpage>
<pub-id pub-id-type="pmid">16845046</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B40"><label>40</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Naito</surname>
<given-names>Y</given-names>
</name>
<name><surname>Nohtomi</surname>
<given-names>K</given-names>
</name>
<name><surname>Onogi</surname>
<given-names>T</given-names>
</name>
<name><surname>Uenishi</surname>
<given-names>R</given-names>
</name>
<name><surname>Ui-Tei</surname>
<given-names>K</given-names>
</name>
<name><surname>Saigo</surname>
<given-names>K</given-names>
</name>
<name><surname>Takebe</surname>
<given-names>Y</given-names>
</name>
</person-group>
<article-title>Optimal design and validation of antiviral siRNA for targeting HIV-1</article-title>
<source>Retrovirology</source>
<year>2007</year>
<volume>4</volume>
<fpage>80</fpage>
<pub-id pub-id-type="pmid">17996047</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B41"><label>41</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Myers</surname>
<given-names>EW</given-names>
</name>
<name><surname>Miller</surname>
<given-names>W</given-names>
</name>
</person-group>
<article-title>Optimal alignments in linear space</article-title>
<source>Comput. Appl. Biosci.</source>
<year>1988</year>
<volume>4</volume>
<fpage>11</fpage>
<lpage>17</lpage>
<pub-id pub-id-type="pmid">3382986</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B42"><label>42</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Das</surname>
<given-names>AT</given-names>
</name>
<name><surname>Brummelkamp</surname>
<given-names>TR</given-names>
</name>
<name><surname>Westerhout</surname>
<given-names>EM</given-names>
</name>
<name><surname>Vink</surname>
<given-names>M</given-names>
</name>
<name><surname>Madiredjo</surname>
<given-names>M</given-names>
</name>
<name><surname>Bernards</surname>
<given-names>R</given-names>
</name>
<name><surname>Berkhout</surname>
<given-names>B</given-names>
</name>
</person-group>
<article-title>Human immunodeficiency virus type 1 escapes from RNA interference-mediated inhibition</article-title>
<source>J. Virol.</source>
<year>2004</year>
<volume>78</volume>
<fpage>2601</fpage>
<lpage>2605</lpage>
<pub-id pub-id-type="pmid">14963165</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B43"><label>43</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Wilson</surname>
<given-names>JA</given-names>
</name>
<name><surname>Richardson</surname>
<given-names>CD</given-names>
</name>
</person-group>
<article-title>Hepatitis C virus replicons escape RNA interference induced by a short interfering RNA directed against the NS5b coding region</article-title>
<source>J. Virol.</source>
<year>2005</year>
<volume>79</volume>
<fpage>7050</fpage>
<lpage>7058</lpage>
<pub-id pub-id-type="pmid">15890944</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B44"><label>44</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Konishi</surname>
<given-names>M</given-names>
</name>
<name><surname>Wu</surname>
<given-names>CH</given-names>
</name>
<name><surname>Kaito</surname>
<given-names>M</given-names>
</name>
<name><surname>Hayashi</surname>
<given-names>K</given-names>
</name>
<name><surname>Watanabe</surname>
<given-names>S</given-names>
</name>
<name><surname>Adachi</surname>
<given-names>Y</given-names>
</name>
<name><surname>Wu</surname>
<given-names>GY</given-names>
</name>
</person-group>
<article-title>siRNA-resistance in treated HCV replicon cells is correlated with the development of specific HCV mutations</article-title>
<source>J. Viral. Hepat.</source>
<year>2006</year>
<volume>13</volume>
<fpage>756</fpage>
<lpage>761</lpage>
<pub-id pub-id-type="pmid">17052275</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B45"><label>45</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Jun</surname>
<given-names>EJ</given-names>
</name>
<name><surname>Nam</surname>
<given-names>YR</given-names>
</name>
<name><surname>Ahn</surname>
<given-names>J</given-names>
</name>
<name><surname>Tchah</surname>
<given-names>H</given-names>
</name>
<name><surname>Joo</surname>
<given-names>CH</given-names>
</name>
<name><surname>Jee</surname>
<given-names>Y</given-names>
</name>
<name><surname>Kim</surname>
<given-names>YK</given-names>
</name>
<name><surname>Lee</surname>
<given-names>H</given-names>
</name>
</person-group>
<article-title>Antiviral potency of a siRNA targeting a conserved region of coxsackievirus A24</article-title>
<source>Biochem. Biophys. Res. Commun.</source>
<year>2008</year>
<volume>376</volume>
<fpage>389</fpage>
<lpage>394</lpage>
<pub-id pub-id-type="pmid">18793610</pub-id>
</element-citation>
</ref>
<ref id="gkr1147-B46"><label>46</label>
<element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Rice</surname>
<given-names>P</given-names>
</name>
<name><surname>Longden</surname>
<given-names>I</given-names>
</name>
<name><surname>Bleasby</surname>
<given-names>A</given-names>
</name>
</person-group>
<article-title>EMBOSS: the European Molecular Biology Open Software Suite</article-title>
<source>Trends Genet.</source>
<year>2000</year>
<volume>16</volume>
<fpage>276</fpage>
<lpage>277</lpage>
<pub-id pub-id-type="pmid">10827456</pub-id>
</element-citation>
</ref>
</ref-list>
</back>
</pmc>
</record>
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