Related Articles for PubMed (Select 16472402)

Computational models with thermodynamic and composition features improve siRNA design.

Shabalina SA, Spiridonov AN, Ogurtsov AY.

BMC Bioinformatics. 2006 Feb 12;7:65.

PMID: 16472402 [PubMed - indexed for MEDLINE]

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.

PMID: 16729898 [PubMed - indexed for MEDLINE]

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 [PubMed - indexed for MEDLINE]

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 [PubMed - indexed for MEDLINE]

Improving model predictions for RNA interference activities that use support vector machine regression by combining and filtering features.

Peek AS.

BMC Bioinformatics. 2007 Jun 6;8:182.

PMID: 17553157 [PubMed - indexed for MEDLINE]

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 [PubMed - indexed for MEDLINE]

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. Epub 2008 Apr 27.

PMID: 18438400 [PubMed - indexed for MEDLINE]

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 [PubMed - indexed for MEDLINE]

sIR: siRNA Information Resource, a web-based tool for siRNA sequence design and analysis and an open access siRNA database.

Shah JK, Garner HR, White MA, Shames DS, Minna JD.

BMC Bioinformatics. 2007 May 31;8:178.

PMID: 17540034 [PubMed - indexed for MEDLINE]

10:

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 [PubMed - indexed for MEDLINE]

11:

An accurate and interpretable model for siRNA efficacy prediction.

Vert JP, Foveau N, Lajaunie C, Vandenbrouck Y.

BMC Bioinformatics. 2006 Nov 30;7:520.

PMID: 17137497 [PubMed - indexed for MEDLINE]

12:

Impact of target mRNA structure on siRNA silencing efficiency: A large-scale study.

Gredell JA, Berger AK, Walton SP.

Biotechnol Bioeng. 2008 Jul 1;100(4):744-55.

PMID: 18306428 [PubMed - indexed for MEDLINE]

13:

Identification of sequence motifs significantly associated with antisense activity.

McQuisten KA, Peek AS.

BMC Bioinformatics. 2007 Jun 7;8:184.

PMID: 17555590 [PubMed - indexed for MEDLINE]

14:

Efficient RNA interference depends on global context of the target sequence: quantitative analysis of silencing efficiency using Eulerian graph representation of siRNA.

Pancoska P, Moravek Z, Moll UM.

Nucleic Acids Res. 2004 Mar 1;32(4):1469-79. Print 2004.

PMID: 14993466 [PubMed - indexed for MEDLINE]

15:

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.

PMID: 14758366 [PubMed - indexed for MEDLINE]

16:

Sequence characteristics of functional siRNAs.

Jagla B, Aulner N, Kelly PD, Song D, Volchuk A, Zatorski A, Shum D, Mayer T, De Angelis DA, Ouerfelli O, Rutishauser U, Rothman JE.

RNA. 2005 Jun;11(6):864-72.

PMID: 15923373 [PubMed - indexed for MEDLINE]

17:

siRNA becomes smart and intelligent.

Miyagishi M, Taira K.

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

PMID: 16082364 [PubMed - indexed for MEDLINE]

18:

Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change.

Uzilov AV, Keegan JM, Mathews DH.

BMC Bioinformatics. 2006 Mar 27;7:173.

PMID: 16566836 [PubMed - indexed for MEDLINE]

19:

Efficient reduction of target RNAs by small interfering RNA and RNase H-dependent antisense agents. A comparative analysis.

Vickers TA, Koo S, Bennett CF, Crooke ST, Dean NM, Baker BF.

J Biol Chem. 2003 Feb 28;278(9):7108-18. Epub 2002 Dec 23.

PMID: 12500975 [PubMed - indexed for MEDLINE]

20:

Integrated siRNA design based on surveying of features associated with high RNAi effectiveness.

Gong W, Ren Y, Xu Q, Wang Y, Lin D, Zhou H, Li T.

BMC Bioinformatics. 2006 Nov 27;7:516.

PMID: 17129386 [PubMed - indexed for MEDLINE]

Recent Activity