Fruitfly Ribo Club

Fruitfly ncRNA journal club

Time

2-4pm.

Venue

321 Stanley Hall.

Dates

• 01 Nov 2007 - RB: RNAz
• 08 Nov 2007 - YB: Celniker & Rubin: The Drosophila melanogaster genome. Annu Rev Genomics Hum Genet 2003;4:89-117., IH: zipcodes
• 15 Nov 2007 - MS: Evofold (fly section)
• 22 Nov 2007 - Thanksgiving holiday (no meeting)
• 29 Nov 2007 - Postponed (lab move)
• 06 Dec 2007 - Postponed
• 13 Dec 2007 - IH: Keene &: RNA regulons: coordination of post-transcriptional events. Nat. Rev. Genet. 2007;8:533-43.
• 10 Jan 2008 - RB: Lécuyer et al.: Global analysis of mRNA localization reveals a prominent role in organizing cellular architecture and function. Cell 2007;131:174-87.
• 31 Jan 2008 - Gamberi et al.: Drosophila RNA binding proteins. Int. Rev. Cytol. 2006;248:43-139.

Papers

Alternate between "bio" and "informatics" papers?

Bio reviews:

• ncRNA section (p102-103) of this paper (fly genome review):
  • Celniker & Rubin: The Drosophila melanogaster genome. Annu Rev Genomics Hum Genet 2003;4:89-117.

• RNA localization (see also Fly Zipcodes, Nanos Biology)
  • 2005 meeting review (genome-wide screen for localization!): Jansen & Kiebler: Intracellular RNA sorting, transport and localization. Nat. Struct. Mol. Biol. 2005;12:826-9.
  • 2005 review: St Johnston &: Moving messages: the intracellular localization of mRNAs. Nat. Rev. Mol. Cell Biol. 2005;6:363-75.
  • K10: Bullock & Ish-Horowicz: Conserved signals and machinery for RNA transport in Drosophila oogenesis and embryogenesis. Nature 2001;414:611-6.
  • review: Lipshitz & Smibert: Mechanisms of RNA localization and translational regulation. Curr. Opin. Genet. Dev. 2000;10:476-88.
  • nanos/review: Gavis &: Expeditions to the pole: RNA localization in Xenopus and Drosophila. Trends Cell Biol. 1997;7:485-92.

• "RNA regulons"
  • Keene &: RNA regulons: coordination of post-transcriptional events. Nat. Rev. Genet. 2007;8:533-43.

• RNA binding proteins
  • Gamberi et al.: Drosophila RNA binding proteins. Int. Rev. Cytol. 2006;248:43-139.

Sequence analysis screens:

• Computational RNomics of Drosophilids (Rna Z)

• Drosophila ncRNA section of this paper (Evo Fold):
  • Siepel et al.: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005;15:1034-50.

• AAA papers (to appear, preprints available)

• Eric Lai
  • Ruby et al.: Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. Genome Res. 2007;17:1850-64.

Functional genomics screens:

• Pavel Tomancak's genome-wide localization assays:
  • Lécuyer et al.: Global analysis of mRNA localization reveals a prominent role in organizing cellular architecture and function. Cell 2007;131:174-87.