-
1
-
-
1642273831
-
An algorithm for selection of functional siRNA sequences
-
Amarzguioui, M. and Prydz, H. (2004) An algorithm for selection of functional siRNA sequences. Biochem. Biophys. Res. Commun., 316, 1050-1058.
-
(2004)
Biochem. Biophys. Res. Commun.
, vol.316
, pp. 1050-1058
-
-
Amarzguioui, M.1
Prydz, H.2
-
2
-
-
35448980010
-
Functional genomic and serological analysis of the protective immune response resulting from vaccination of macaques with an NS1-truncated influenza virus
-
Baskin, C.R. et al. (2007) Functional genomic and serological analysis of the protective immune response resulting from vaccination of macaques with an NS1-truncated influenza virus. J. Virol., 81, 11817-11827.
-
(2007)
J. Virol.
, vol.81
, pp. 11817-11827
-
-
Baskin, C.R.1
-
3
-
-
33646188259
-
3' UTR seed matches, but not overall identity, are associated with RNAi off-targets
-
Birmingham, A. et al. (2006) 3' UTR seed matches, but not overall identity, are associated with RNAi off-targets. Nat. Methods, 3, 199-204.
-
(2006)
Nat. Methods
, vol.3
, pp. 199-204
-
-
Birmingham, A.1
-
4
-
-
38449100230
-
A protocol for designing siRNAs with high functionality and specificity
-
Birmingham, A. et al. (2007) A protocol for designing siRNAs with high functionality and specificity. Nat. Protoc., 2, 2068-2078.
-
(2007)
Nat. Protoc.
, vol.2
, pp. 2068-2078
-
-
Birmingham, A.1
-
5
-
-
38049161918
-
RNAi for treating hepatitis B viral infection
-
Chen, Y. et al.. (2008) RNAi for treating hepatitis B viral infection. Pharm. Res., 25, 72-86.
-
(2008)
Pharm. Res.
, vol.25
, pp. 72-86
-
-
Chen, Y.1
-
6
-
-
3242877996
-
Sfold web server for statistical folding and rational design of nucleic acids
-
Ding, Y. et al. (2004) Sfold web server for statistical folding and rational design of nucleic acids. Nucleic Acids Res., 32, W135-W141.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Ding, Y.1
-
7
-
-
83355174356
-
Gene silencing in the therapy of influenza and other respiratory diseases: targeting to RNase P by use of External Guide Sequences (EGS)
-
Dreyfus, D.H. et al. (2007) Gene silencing in the therapy of influenza and other respiratory diseases: targeting to RNase P by use of External Guide Sequences (EGS). Biologics, 1, 425-432.
-
(2007)
Biologics
, vol.1
, pp. 425-432
-
-
Dreyfus, D.H.1
-
8
-
-
0035942736
-
Duplexes of 21-nucleotide RNAs mediate RNAinterference in cultured mammalian cells
-
Elbashir, S.M. et al. (2001) Duplexes of 21-nucleotide RNAs mediate RNAinterference in cultured mammalian cells. Nature, 411, 494-498.
-
(2001)
Nature
, vol.411
, pp. 494-498
-
-
Elbashir, S.M.1
-
9
-
-
79251550432
-
Identification of novel conserved functional motifs across most Influenza a viral strains
-
ElHefnawi, M. et al. (2011) Identification of novel conserved functional motifs across most Influenza a viral strains. Virol. J., 8, 44.
-
(2011)
Virol. J.
, vol.8
, pp. 44
-
-
ElHefnawi, M.1
-
10
-
-
0037418322
-
RNAinterference of influenza virus production by directly targeting mRNA for degradation and indirectly inhibiting all viral RNA transcription
-
Ge, Q. et al. (2003) RNAinterference of influenza virus production by directly targeting mRNA for degradation and indirectly inhibiting all viral RNA transcription. Proc. Natl Acad. Sci. USA, 100, 2718-2723.
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 2718-2723
-
-
Ge, Q.1
-
11
-
-
43249105382
-
Impact of target mRNA structure on siRNA silencing efficiency: a large-scale study
-
Gredell, J.A. et al. (2008) Impact of target mRNA structure on siRNA silencing efficiency: a large-scale study. Biotechnol. Bioeng., 100, 744-755.
-
(2008)
Biotechnol. Bioeng.
, vol.100
, pp. 744-755
-
-
Gredell, J.A.1
-
12
-
-
77953784997
-
Inefficient control of host gene expression by the 2009 pandemic H1N1 influenza A virus NS1 protein
-
Hale, B.G. et al. (2010) Inefficient control of host gene expression by the 2009 pandemic H1N1 influenza A virus NS1 protein. J. Virol., 84, 6909-6922.
-
(2010)
J. Virol.
, vol.84
, pp. 6909-6922
-
-
Hale, B.G.1
-
13
-
-
77952312477
-
Designing optimal siRNA based on target site accessibility
-
Hofacker, I.L. and Tafer, H. (2010) Designing optimal siRNA based on target site accessibility. Methods Mol. Biol., 623, 137-154.
-
(2010)
Methods Mol. Biol.
, vol.623
, pp. 137-154
-
-
Hofacker, I.L.1
Tafer, H.2
-
14
-
-
2342564353
-
A library of siRNA duplexes targeting the phosphoinositide 3-kinase pathway: determinants of gene silencing for use in cell-based screens
-
Hsieh, A.C. et al. (2004) A library of siRNA duplexes targeting the phosphoinositide 3-kinase pathway: determinants of gene silencing for use in cell-based screens. Nucleic Acids Res., 32, 893-901.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 893-901
-
-
Hsieh, A.C.1
-
16
-
-
23444437819
-
Design of a genome-wide siRNA library using an artificial neural network
-
Huesken, D. et al. (2005) Design of a genome-wide siRNA library using an artificial neural network. Nat. Biotechnol., 23, 995-1001.
-
(2005)
Nat. Biotechnol.
, vol.23
, pp. 995-1001
-
-
Huesken, D.1
-
17
-
-
35548980865
-
Thermodynamic instability of siRNA duplex is a prerequisite for dependable prediction of siRNA activities
-
Ichihara, M. et al. (2007) Thermodynamic instability of siRNA duplex is a prerequisite for dependable prediction of siRNA activities. Nucleic Acids Res., 35, e123.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Ichihara, M.1
-
18
-
-
3543009635
-
RNA interference: a potent tool for gene-specific therapeutics
-
Ichim, T.E. et al. (2004) RNA interference: a potent tool for gene-specific therapeutics. Am. J. Transplant., 4, 1227-1236.
-
(2004)
Am. J. Transplant.
, vol.4
, pp. 1227-1236
-
-
Ichim, T.E.1
-
19
-
-
33745614074
-
Position-specific chemical modification of siRNAs reduces "off-target" transcript silencing
-
Jackson, A.L. et al. (2006a) Position-specific chemical modification of siRNAs reduces "off-target" transcript silencing. RNA, 12, 1197-1205.
-
(2006)
RNA
, vol.12
, pp. 1197-1205
-
-
Jackson, A.L.1
-
20
-
-
33745612464
-
Widespread siRNA"off-target" transcript silencing mediated by seed region sequence complementarity
-
Jackson, A.L. et al. (2006b)Widespread siRNA"off-target" transcript silencing mediated by seed region sequence complementarity. RNA, 12, 1179-1187.
-
(2006)
RNA
, vol.12
, pp. 1179-1187
-
-
Jackson, A.L.1
-
21
-
-
74049124186
-
Recognizing and avoiding siRNAoff-target effects for target identification and therapeutic application
-
Jackson, A.L. and Linsley, P.S. (2010) Recognizing and avoiding siRNAoff-target effects for target identification and therapeutic application. Nat. Rev. Drug Discov., 9, 57-67.
-
(2010)
Nat. Rev. Drug Discov.
, vol.9
, pp. 57-67
-
-
Jackson, A.L.1
Linsley, P.S.2
-
22
-
-
33847036990
-
Strategies for silencing human disease using RNA interference
-
Kim, D.H. and Rossi, J.J. (2007) Strategies for silencing human disease using RNA interference. Nat. Rev. Genet., 8, 173-184.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 173-184
-
-
Kim, D.H.1
Rossi, J.J.2
-
23
-
-
67649236703
-
Approximate Bayesian feature selection on a large metadataset offers novel insights on factors that effect siRNA potency
-
Klingelhoefer, J.W. et al. (2009)Approximate Bayesian feature selection on a large metadataset offers novel insights on factors that effect siRNA potency. Bioinformatics, 25, 1594-1601.
-
(2009)
Bioinformatics
, vol.25
, pp. 1594-1601
-
-
Klingelhoefer, J.W.1
-
24
-
-
39149106448
-
Efficient siRNA selection using hybridization thermodynamics
-
Lu, Z.J. and Mathews, D.H. (2008) Efficient siRNA selection using hybridization thermodynamics. Nucleic Acids Res., 36, 640-647.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. 640-647
-
-
Lu, Z.J.1
Mathews, D.H.2
-
25
-
-
34250309149
-
Comparison of approaches for rational siRNA design leading to a new efficient and transparent method
-
Matveeva, O. et al. (2007) Comparison of approaches for rational siRNA design leading to a new efficient and transparent method. Nucleic Acids Res., 35, e63.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Matveeva, O.1
-
26
-
-
41149161324
-
Apotential treatment for pandemic influenza using siRNAs targeting conserved regions of influenza A
-
McSwiggen, J.A. and Seth, S.; (2008)Apotential treatment for pandemic influenza using siRNAs targeting conserved regions of influenza A. Expert Opin. Biol. Ther., 8, 299-313.
-
(2008)
Expert Opin. Biol. Ther.
, vol.8
, pp. 299-313
-
-
McSwiggen, J.A.1
Seth, S.2
-
27
-
-
1242318826
-
Sequence-specific inhibition of microRNA- and siRNA-induced RNA silencing
-
Meister, G. et al. (2004) Sequence-specific inhibition of microRNA- and siRNA-induced RNA silencing. RNA, 10, 544-550.
-
(2004)
RNA
, vol.10
, pp. 544-550
-
-
Meister, G.1
-
28
-
-
33646877072
-
Thermodynamics of RNA-RNA binding
-
Muckstein, U. et al. (2006) Thermodynamics of RNA-RNA binding. Bioinformatics, 22, 1177-1182.
-
(2006)
Bioinformatics
, vol.22
, pp. 1177-1182
-
-
Muckstein, U.1
-
29
-
-
38349166714
-
Optimal design and validation of antiviral siRNA for targeting HIV-1
-
Naito, Y. et al. (2007) Optimal design and validation of antiviral siRNA for targeting HIV-1. Retrovirology, 4, 80.
-
(2007)
Retrovirology
, vol.4
, pp. 80
-
-
Naito, Y.1
-
30
-
-
33747869038
-
siVirus: web-based antiviral siRNA design software for highly divergent viral sequences
-
Naito, Y. et al. (2006) siVirus: web-based antiviral siRNA design software for highly divergent viral sequences. Nucleic Acids Res., 34, W448-W450.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Naito, Y.1
-
31
-
-
3242889236
-
siDirect: highly effective, target-specific siRNA design software for mammalian RNA interference
-
Naito, Y. et al. (2004) siDirect: highly effective, target-specific siRNA design software for mammalian RNA interference. Nucleic Acids Res., 32, W124-W129.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Naito, Y.1
-
32
-
-
72549097028
-
siDirect 2.0: updated software for designing functional siRNA with reduced seed-dependent off-target effect
-
Naito, Y. et al. (2009) siDirect 2.0: updated software for designing functional siRNA with reduced seed-dependent off-target effect. BMC Bioinformatics, 10, 392.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 392
-
-
Naito, Y.1
-
33
-
-
33846614547
-
In silico selection of active siRNA
-
Patzel, V. (2007) In silico selection of active siRNA. Drug Discov. Today, 12, 139-148.
-
(2007)
Drug Discov. Today
, vol.12
, pp. 139-148
-
-
Patzel, V.1
-
34
-
-
27944473306
-
Design of siRNAs producing unstructured guide-RNAs results in improved RNA interference efficiency
-
Patzel, V. et al. (2005) Design of siRNAs producing unstructured guide-RNAs results in improved RNA interference efficiency. Nat. Biotechnol., 23, 1440-1444.
-
(2005)
Nat. Biotechnol.
, vol.23
, pp. 1440-1444
-
-
Patzel, V.1
-
35
-
-
1542336952
-
Rational siRNAdesign forRNAinterference
-
Reynolds, A. et al. (2004) Rational siRNAdesign forRNAinterference. Nat. Biotechnol., 22, 326-330.
-
(2004)
Nat. Biotechnol.
, vol.22
, pp. 326-330
-
-
Reynolds, A.1
-
36
-
-
33645822531
-
siRecords: an extensive database of mammalian siRNAs with efficacy ratings
-
Ren, Y. et al. (2006) siRecords: an extensive database of mammalian siRNAs with efficacy ratings. Bioinformatics, 22, 1027-1028.
-
(2006)
Bioinformatics
, vol.22
, pp. 1027-1028
-
-
Ren, Y.1
-
37
-
-
33748701701
-
Computational models with thermodynamic and composition features improve siRNA design
-
Shabalina, S.A. et al. (2006) Computational models with thermodynamic and composition features improve siRNA design. BMC Bioinformatics, 7, 65.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 65
-
-
Shabalina, S.A.1
-
38
-
-
62049083943
-
Structural and functional bases for broad-spectrum neutralization of avian and human influenza A viruses
-
Sui, J. et al. (2009) Structural and functional bases for broad-spectrum neutralization of avian and human influenza A viruses. Nat. Struct. Mol. Biol., 16, 265-273.
-
(2009)
Nat. Struct. Mol. Biol.
, vol.16
, pp. 265-273
-
-
Sui, J.1
-
39
-
-
53149132028
-
Closed chromatin architecture is induced by an RNA duplex targeting the HIV-1 promoter region
-
Suzuki, K. et al. (2008) Closed chromatin architecture is induced by an RNA duplex targeting the HIV-1 promoter region. J. Biol. Chem., 283, 23353-23363.
-
(2008)
J. Biol. Chem.
, vol.283
, pp. 23353-23363
-
-
Suzuki, K.1
-
40
-
-
43449124403
-
The impact of target site accessibility on the design of effective siRNAs
-
Tafer, H. et al. (2008) The impact of target site accessibility on the design of effective siRNAs. Nat. Biotechnol., 26, 578-583.
-
(2008)
Nat. Biotechnol.
, vol.26
, pp. 578-583
-
-
Tafer, H.1
-
41
-
-
83355170006
-
High content screening: a powerful approach to systems cell biology and drug discovery
-
Gregory Moore, K. et al. (eds) Humana Press, United States, NY
-
Taylor1, D.L. et al. (2008) High content screening: a powerful approach to systems cell biology and drug discovery. In Gregory Moore, K. et al. (eds) Methods in Molecular Biology Part III. Humana Press, United States, NY, pp. 245-251.
-
(2008)
Methods in Molecular Biology Part III
, pp. 245-251
-
-
Taylor1, D.L.1
-
42
-
-
77957925036
-
A status report on RNAi therapeutics
-
Vaishnaw, A.K. et al. (2011) A status report on RNAi therapeutics. Silence, 1, 14.
-
(2011)
Silence
, vol.1
, pp. 14
-
-
Vaishnaw, A.K.1
-
43
-
-
11844283922
-
Gene knockdown with intrathecal siRNA of NMDA receptor NR2B subunit reduces formalin-induced nociception in the rat
-
Tan, P.H. et al. (2005) Gene knockdown with intrathecal siRNA of NMDA receptor NR2B subunit reduces formalin-induced nociception in the rat. Gene Ther., 12, 59.
-
(2005)
Gene Ther
, vol.12
, pp. 59
-
-
Tan, P.H.1
-
44
-
-
1642346273
-
Guidelines for the selection of highly effective siRNA sequences for mammalian and chick RNA interference
-
Ui-Tei, K. et al. (2004) Guidelines for the selection of highly effective siRNA sequences for mammalian and chick RNA interference. Nucleic Acids Res., 32, 936-948.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 936-948
-
-
Ui-Tei, K.1
-
45
-
-
33845663097
-
An accurate and interpretable model for siRNAefficacy prediction
-
Vert, J.P. et al. (2006)An accurate and interpretable model for siRNAefficacy prediction. BMC Bioinformatics, 7, 520.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 520
-
-
Vert, J.P.1
-
46
-
-
13444282536
-
Filtering of ineffective siRNAs and improved siRNA design tool
-
Yiu, S.M. et al. (2005) Filtering of ineffective siRNAs and improved siRNA design tool. Bioinformatics, 21, 144-151.
-
(2005)
Bioinformatics
, vol.21
, pp. 144-151
-
-
Yiu, S.M.1
-
47
-
-
34548637012
-
Effective small interfering RNAs targeting matrix and nucleocapsid protein gene inhibit influenza A virus replication in cells and mice
-
Zhou, H. et al. (2007) Effective small interfering RNAs targeting matrix and nucleocapsid protein gene inhibit influenza A virus replication in cells and mice. Antiviral Res., 76, 186-193.
-
(2007)
Antiviral Res.
, vol.76
, pp. 186-193
-
-
Zhou, H.1
-
48
-
-
43849112336
-
RNA interference of avian influenza virus H5N1 by inhibiting viral mRNA with siRNA expression plasmids
-
Zhou, K. et al. (2008) RNA interference of avian influenza virus H5N1 by inhibiting viral mRNA with siRNA expression plasmids. J. Biotechnol., 135, 140-144.
-
(2008)
J. Biotechnol.
, vol.135
, pp. 140-144
-
-
Zhou, K.1
|