Feb - Sean Eddy¶

Speaker: Sean Eddy

Talk Title: Remote RNA homology detection

Event Details

Date/Time:

February 7, 2007, 6:00pm (Note this is a Wednesday as opposed to usual Thursday)

Affiliation: Howard Hughes Medical Institute, Janelia Farm Research Campus.

URL: Sean Eddy

Presentation: Presentation Download

Abstract:

Many functional RNA genes and regulatory motifs conserve not only

their sequence but also a base-paired secondary structure, so RNA

homology searches should take both sequence and structure into

account. “Stochastic context-free grammars” (SCFGs) provide a

well-grounded, fully probabilistic framework in which to construct RNA

structure/sequence analysis algorithms, including RNA homology search

algorithms in addition to other applications such as RNA genefinding.

I will discuss recent advances in our Infernal profile SCFG software

for RNA homology search, including a new probabilistic method called

QDB (query-dependent banding) for accelerating Infernal about

five-fold. I will also discuss the status of the growing Rfam database

of structural RNA alignments.

Student Speaker: Ryan Morin

Affiliation: BC Genome Sciences Centre, supervised by Marco Marra

Talk title: Identifying and classifying functional small RNAs from pine

Presentation: Ryan Morin Student Presentation