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Items: 1 to 20 of 142

1.

Prediction of siRNA knockdown efficiency using artificial neural network models.

Ge G, Wong GW, Luo B.

Biochem Biophys Res Commun. 2005 Oct 21;336(2):723-8.

PMID:
16153609
2.

Computational models with thermodynamic and composition features improve siRNA design.

Shabalina SA, Spiridonov AN, Ogurtsov AY.

BMC Bioinformatics. 2006 Feb 12;7:65.

3.

Design of a genome-wide siRNA library using an artificial neural network.

Huesken D, Lange J, Mickanin C, Weiler J, Asselbergs F, Warner J, Meloon B, Engel S, Rosenberg A, Cohen D, Labow M, Reinhardt M, Natt F, Hall J.

Nat Biotechnol. 2005 Aug;23(8):995-1001. Epub 2005 Jul 17. Erratum in: Nat Biotechnol. 2005 Oct;23(10):1315. Nat Biotechnol. 2006 Aug;24(8):1033.

PMID:
16025102
4.

The impact of target site accessibility on the design of effective siRNAs.

Tafer H, Ameres SL, Obernosterer G, Gebeshuber CA, Schroeder R, Martinez J, Hofacker IL.

Nat Biotechnol. 2008 May;26(5):578-83. doi: 10.1038/nbt1404. Epub 2008 Apr 27.

PMID:
18438400
5.

Demonstration of two novel methods for predicting functional siRNA efficiency.

Jia P, Shi T, Cai Y, Li Y.

BMC Bioinformatics. 2006 May 29;7:271.

6.

An algorithm for selection of functional siRNA sequences.

Amarzguioui M, Prydz H.

Biochem Biophys Res Commun. 2004 Apr 16;316(4):1050-8.

PMID:
15044091
7.

Efficient prediction methods for selecting effective siRNA sequences.

Takasaki S.

Comput Biol Med. 2010 Feb;40(2):149-58. doi: 10.1016/j.compbiomed.2009.11.011.

PMID:
20022002
8.

RFRCDB-siRNA: improved design of siRNAs by random forest regression model coupled with database searching.

Jiang P, Wu H, Da Y, Sang F, Wei J, Sun X, Lu Z.

Comput Methods Programs Biomed. 2007 Sep;87(3):230-8. Epub 2007 Jul 17.

PMID:
17644215
9.

Criteria for effective design, construction, and gene knockdown by shRNA vectors.

Taxman DJ, Livingstone LR, Zhang J, Conti BJ, Iocca HA, Williams KL, Lich JD, Ting JP, Reed W.

BMC Biotechnol. 2006 Jan 24;6:7.

10.

A comparison of siRNA efficacy predictors.

Saetrom P, Snøve O Jr.

Biochem Biophys Res Commun. 2004 Aug 13;321(1):247-53.

PMID:
15358242
11.

Selecting effective siRNA target sequences by using Bayes' theorem.

Takasaki S.

Comput Biol Chem. 2009 Oct;33(5):368-72. doi: 10.1016/j.compbiolchem.2009.07.009. Epub 2009 Jul 19.

PMID:
19682951
12.

Filtering of ineffective siRNAs and improved siRNA design tool.

Yiu SM, Wong PW, Lam TW, Mui YC, Kung HF, Lin M, Cheung YT.

Bioinformatics. 2005 Jan 15;21(2):144-51. Epub 2004 Aug 27.

PMID:
15333460
13.

Rational siRNA design for RNA interference.

Reynolds A, Leake D, Boese Q, Scaringe S, Marshall WS, Khvorova A.

Nat Biotechnol. 2004 Mar;22(3):326-30. Epub 2004 Feb 1.

14.

Highly specific and accurate selection of siRNAs for high-throughput functional assays.

Santoyo J, Vaquerizas JM, Dopazo J.

Bioinformatics. 2005 Apr 15;21(8):1376-82. Epub 2004 Dec 10.

PMID:
15591357
15.

Efficient RNAi-based gene family knockdown via set cover optimization.

Zhao W, Fanning ML, Lane T.

Artif Intell Med. 2005 Sep-Oct;35(1-2):61-73.

PMID:
16084706
16.

MysiRNA: improving siRNA efficacy prediction using a machine-learning model combining multi-tools and whole stacking energy (ΔG).

Mysara M, Elhefnawi M, Garibaldi JM.

J Biomed Inform. 2012 Jun;45(3):528-34. doi: 10.1016/j.jbi.2012.02.005. Epub 2012 Feb 25.

17.

Thermodynamic instability of siRNA duplex is a prerequisite for dependable prediction of siRNA activities.

Ichihara M, Murakumo Y, Masuda A, Matsuura T, Asai N, Jijiwa M, Ishida M, Shinmi J, Yatsuya H, Qiao S, Takahashi M, Ohno K.

Nucleic Acids Res. 2007;35(18):e123. Epub 2007 Sep 20.

18.

Coding potential prediction in Wolbachia using artificial neural networks.

Lambros S, Panos I, Spiridon L.

In Silico Biol. 2007;7(1):105-13.

PMID:
17688435
19.

siRNA becomes smart and intelligent.

Miyagishi M, Taira K.

Nat Biotechnol. 2005 Aug;23(8):946-7. No abstract available.

PMID:
16082364
20.

Designing effective siRNAs with off-target control.

Snøve O Jr, Nedland M, Fjeldstad SH, Humberset H, Birkeland OR, Grünfeld T, Saetrom P.

Biochem Biophys Res Commun. 2004 Dec 17;325(3):769-73.

PMID:
15541356

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