Thanks for attending the CSB2005 RNAi tutorial.

This site contains pdfs of the papers referenced in the tutorial. You can also download pdfs of the slides, in color and black and white.



Listing of the references

Wikipedia 
http://en.wikipedia.org/wiki/RNA_interference
*Provides Links to animations and recent Nova program on RNAi

Breakthrough of the Year_Science_2002

Brennecke J, Stark A, Russell RB, Cohen SM. Principles of microRNA-target recognition. PLoS Biol. 2005 Mar;3(3):e85. 

Chen CZ, Li L, Lodish HF, Bartel DP. MicroRNAs modulate hematopoietic lineage differentiation. Science. 2004 Jan 2;303(5654):83-6.

Dykxhoorn DM, Lieberman J. The silent revolution: RNA interference as basic biology, research tool, and therapeutic. Annu Rev Med. 2005;56:401-23.

Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, Tuschl T. Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature. 2001 May 24;411(6836):494-8.

Fire A, Xu S, Montgomery MK, Kostas SA, Driver SE, Mello CC. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature. 1998 Feb 19;391(6669):806-11.

Gong D, Ferrell JE Jr. Picking a winner: new mechanistic insights into the design of effective siRNAs. Trends Biotechnol. 2004 Sep;22(9):451-4.

Gregory RI, Shiekhattar R.MicroRNA biogenesis and cancer. Cancer Res. 2005 May 1;65(9):3509-12.

Grun D, Wang YL, Langenberger D, Gunsalus KC, Rajewsky N. microRNA Target Predictions across Seven Drosophila Species and Comparison to Mammalian Targets. PLoS Computational Biology June 2005 | Volume 1 | Issue 1.

Guo S, Kemphues KJ. par-1, a gene required for establishing polarity in C. elegans embryos, encodes a putative Ser/Thr kinase that is asymmetrically distributed. Cell. 1995 May 19;81(4):611-20. 

He L, Hannon GJ. MicroRNAs: small RNAs with a big role in gene regulation. Nat Rev Genet. 2004 Jul;5(7):522-31.

He L, Thomson JM, Hemann MT, Hernando-Monge E, Mu D, Goodson S, Powers S, Cordon-Cardo C, Lowe SW, Hannon GJ, Hammond SM. A microRNA polycistron as a potential human oncogene. Nature. 2005 Jun 9;435(7043):828-33. 

Jackson AL, Linsley PS.	Noise amidst the silence: off-target effects of siRNAs? Trends Genet. 2004 Nov;20(11):521-4. 

Jackson AL, Bartz SR, Schelter J, Kobayashi SV, Burchard J, Mao M, Li B, Cavet G, Linsley PS.Expression profiling reveals off-target gene regulation by RNAi.
Nat Biotechnol. 2003 Jun;21(6):635-7.

Kim JK, Gabel HW, Kamath RS, Tewari M, Pasquinelli A, Rual JF, Kennedy S, Dybbs M, Bertin N, Kaplan JM, Vidal M, Ruvkun G. Functional genomic analysis of RNA interference in C. elegans. Science. 2005 May 20;308(5725):1164-7.

Kumar M., Carmichael GG. Antisense RNA: function and fate of duplex RNA in cells of higher eukaryotes. 
Microbiol Mol Biol Rev. 1998 Dec;62(4):1415-34.

Lee R, Feinbaum R, Ambros V. A short history of a short RNA.
Cell. 2004 Jan 23;116(2 Suppl):S89-92, 1 p following S96. 

Leaman D, Chen PY, Fak J, Yalcin A, Pearce M, Unnerstall U, Marks DS, Sander C, Tuschl T, Gaul U. Antisense-mediated depletion reveals essential and specific functions of microRNAs in Drosophila development. Cell. 2005 Jul 1;121(7):1097-108.

Lu J, Getz G, Miska EA, Alvarez-Saavedra E, Lamb J, Peck D, Sweet-Cordero A, Ebert BL, Mak RH, Ferrando AA, Downing JR, Jacks T, Horvitz HR, Golub TR. MicroRNA expression profiles classify human cancers. Nature. 2005 Jun 9;435(7043):745-6.

Ma JB, Yuan YR, Meister G, Pei Y, Tuschl T, Patel DJ. Structural basis for 5'-end-specific recognition of guide RNA by the A. fulgidus Piwi protein. Nature. 2005 Mar 31;434(7033):666-70.

Matzke MA, Birchler JA. RNAi-mediated pathways in the nucleus. Nat Rev Genet. 2005 Jan;6(1):24-35. Review. 

Napoli C, Lemieux C, Jorgensen R. Introduction of a Chimeric Chalcone Synthase Gene into Petunia Results in Reversible Co-Suppression of Homologous Genes in trans. Plant Cell. 1990 Apr;2(4):279-289.

Novina CD, Murray MF, Dykxhoorn DM, Beresford PJ, Riess J, Lee SK, Collman RG, Lieberman J, Shankar P, Sharp PA. siRNA-directed inhibition of HIV-1 infection. Nat Med. 2002 Jul;8(7):681-6. Epub 2002 Jun 3. 

Pasquinelli AE, Reinhart BJ, Slack F, Martindale MQ, Kuroda MI, Maller B, Hayward DC, Ball EE, Degnan B, Muller P, Spring J, Srinivasan A, Fishman M, Finnerty J, Corbo J, Levine M, Leahy P, Davidson E, Ruvkun G. Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA. Nature. 2000 Nov 2;408(6808):86-9. 

Philips JA, Rubin EJ, Perrimon N. Drosophila RNAi Screen Reveals CD36 Family Member Required for Mycobacterial Infection.
Science. 2005 Jul 14; [Epub ahead of print] 

Ruvkun G, Wightman B, Ha I. The 20 years it took to recognize the importance of tiny RNAs. Cell. 2004 Jan 23;116(2 Suppl):S93-6, 2 p following S96. 

Shankar P, Manjunath N, Lieberman J.The prospect of silencing disease using RNA interference. JAMA. 2005 Mar 16;293(11):1367-73. Review.

Song E, Zhu P, Lee SK, Chowdhury D, Kussman S, Dykxhoorn DM, Feng Y, Palliser D, Weiner DB, Shankar P, Marasco WA, Lieberman J.Antibody mediated in vivo delivery of small interfering RNAs via cell-surface receptors.
Nat Biotechnol. 2005 Jun;23(6):709-17.

Tomari Y, Zamore PD. Perspective: machines for RNAi.
Genes Dev. 2005 Mar 1;19(5):517-29. Review.