806888 UE Praktikum Bioinformatik I

4 stündiges Blockpraktikum. Ziel ist die selbstständige Durchführung eines kleinen Forschungsprojekts aus dem Bereich Themenkreis RNA Strukturen

Ort: Computer-Praktikumsraum des Inst. f. Theoret. Chemie,
Rennweg 95b, 1030 Wien EINGANG: Dr. Bohrg. 7, großes Gebäude im Hof.

Thema 2006/7:

noncoding RNAs in teleost fishes

Background

In higher organisms, protein coding genes represent only a small fraction of the transcriptional output of the cell. While non-coding RNAs are ubiquitous, there's only a small number of ncRNAs classes that have been studied in any detail and that have known characteristics (e.g. tRNAs, miRNAs, snoRNAs). Here we will perform a computational screen for structural ncRNAs in fish genomes.

The major subgroups of the Gnathostomata (jawed vertebrates) are the Sarcopterygii (lobe-finned fishes, this includes the tetrapoda and thus all land-living vertebrates) and the Actinopterygii (ray-finned fishes [most of "usual" fishes]). See entries in tree of life web and wikipedia.

A previous screen (Washietl 2005, see link below) with human as the reference genome found about 36000 ncRNA candidates in mammals, including about 1000 that are shared between mammals and fish. It is thus of interest to see whether a large ncRNA repertoire is a special characteristic of the mammals, or whether Actinopterygii as the other large vertebrate subgroup have a similar number of (fish-specific) ncRNAs.

Organismen (Genome)

EnsEMBL or its Austrian mirror

Literatur und Software

Last modified: 2007-01-22 12:34:20 ivo