RNAs everywhere: genome-wide annotation of structured RNAs.
Starting with the discovery of microRNAs and the advent of genome-wide transcriptomics, non-protein-coding transcripts have moved from a fringe topic to a central field research in molecular biology. In this contribution we review the state of the art of "computational RNomics", i.e., the bioinformatics approaches to genome-wide RNA annotation. Instead of rehashing results from recently published surveys in detail, we focus here on the open problem in the field, namely (functional) annotation of the plethora of putative RNAs. A series of exploratory studies are used to provide non-trivial examples for the discussion of some of the difficulties.
Bioinformatics Group, Department of Computer Science, University of Freiburg, D-79110 Freiburg, Germany.
Backofen
Rolf
R
Bernhart
Stephan H
SH
Flamm
Christoph
C
Fried
Claudia
C
Fritzsch
Guido
G
Hackermüller
Jörg
J
Hertel
Jana
J
Hofacker
Ivo L
IL
Missal
Kristin
K
Mosig
Axel
A
Prohaska
Sonja J
SJ
Rose
Dominic
D
Stadler
Peter F
PF
Tanzer
Andrea
A
Washietl
Stefan
S
Will
Sebastian
S
D005075:Biological Evolution; D019295:Computational Biology; D016678:Genome; D012313:RNA / Q000737:chemistry / Q000145:classification* / Q000235:genetics*
D012313:RNA