Bioinformatický seminár

Tue 5 Apr. 2011, 17:20
I-9

Title: Salari et al. smyRNA: a novel Ab initio ncRNA gene finder
Speaker: Ivana Selečéniová

BACKGROUND: Non-coding RNAs (ncRNAs) have important functional roles in
the cell: for example, they regulate gene expression by means of
establishing stable joint structures with target mRNAs via complementary
sequence motifs. Sequence motifs are also important determinants of the
structure of ncRNAs. Although ncRNAs are abundant, discovering novel
ncRNAs on genome sequences has proven to be a hard task; in particular
past attempts for ab initio ncRNA search mostly failed with the exception
of tools that can identify micro RNAs. METHODOLOGY/PRINCIPAL FINDINGS: We
present a very general ab initio ncRNA gene finder that exploits
differential distributions of sequence motifs between ncRNAs and
background genome sequences. CONCLUSIONS/SIGNIFICANCE: Our method, once
trained on a set of ncRNAs from a given species, can be applied to a
genome sequences of other organisms to find not only ncRNAs homologous to
those in the training set but also others that potentially belong to novel
(and perhaps unknown) ncRNA families. AVAILABILITY:
(http://compbio.cs.sfu.ca/taverna/smyrna).