Readings Cotranscriptional RNA processing • The C‐terminal domain of RNA polymerase II couples mRNA processing to transcription.McCracken S, Fong N, Yankulov K, Ballantyne S, Pan G, Greenblatt J, Patterson SD, Wickens M, Bentley DL.Nature. 1997 Jan 23;385(6614):357‐61. • An extensive network of coupling among gene expression machines.Maniatis T, Reed R.Nature. 2002 Apr 4;416(6880): 499‐506. Review. • Curr Opin Cell Biol. 2005 Jun;17(3):262‐8.Promoter usage and alternative splicing.Kornblihtt AR. In red those papers that are part of the exam (i.e. one question will be to comment a figure) Readings pre mRNA splicing • Mechanism of Alternative pre mRNA splicing Douglas Black Annu Rev Biochem 2003 • Another step forward for SELEXive splicing.Buratti E, Baralle FE.Trends Mol Med. 2005 Jan;11(1):5‐9. Review. • Listening to silence and understanding nonsense: exonic mutations that affect splicing.Cartegni L, Chew SL, Krainer AR. Nat Rev Genet. 2002 Apr;3 (4):285‐98 • Determinants of SR protein specificity.Tacke R, Manley JL.Curr Opin Cell Biol. 1999 Jun;11(3):358‐62. Review. • Nat Struct Mol Biol. 2009 Sep;16(9):902‐3.When chromatin meets splicing.Kornblihtt AR, Schor IE, Allo M, Blencowe BJ.

In red those papers that are part of the exam (i.e. one question will be to comment a figure) Readings polyA and RNA editing

• HITS‐CLIP yields genome‐wide insights into brain alternative RNA processing. Licatalosi DD, et al (The CLIP identify NOVA as regulator of Alterantive PolyAdenilation) • Mechanisms and consequences of alternative polyadenylation.Di Giammartino DC, Nishida K, Manley JL.Mol Cell. 2011 Sep 16;43(6):853‐66. • Molecular diversity through RNA editing: a balancing act.Farajollahi S, Maas S.Trends Genet. 2010 May;26(5):221‐30. Epub 2010 Apr 13. Review.

In red those papers that are part of the exam (i.e. one question will be to comment a figure of these papers) Readings

• MMo Chen and James L. Manley. Mechanisms of alternative splicing regulation: insights from molecular and genomics approaches NATURE REVIEwS ,Molecular cell Biology , 10, 2009, 741. • Nilsen TW, Graveley BR. Expansion of the eukaryotic proteome by alternative splicing. Nature. 2010 Jan 28;463(7280):457‐63. • Ule J, Jensen KB, Ruggiu M, Mele A, Ule A, Darnell RB. CLIP identifies Nova‐regulated RNA networks in the brain. Science. 2003 Nov 14;302(5648):1212‐5. • Anna Corrionero and Juan Valcarcel Molecular. Cell 36, December 24, 2009 (News and Views on CLIP assays) • Alberto Kornblihtt. Promoter usage and alternative splicing . Current Opinion Cell Biol 2005 17:262‐268. • Nature Structural & Molecular Biology 16, 902 ‐ 903 (2009) When chromatin meets splicing Kornblihtt A. et al • Nature. 2008 Nov 27;456(7221):464‐9 HITS‐CLIP yields genome‐wide insights into brain alternative RNA processing. Licatalosi DD, et al (The CLIP identify NOVA as regulator of Alterantive PolyAdenilation)

In red those papers that are part of the exam (i.e. one question will be to comment a figure)