Feb - Sean Eddy¶
Speaker: Sean Eddy
Talk Title: Remote RNA homology detection
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
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
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