Automatic functional transcriptomic annotation

Bioinformatic school CIBA

Manuel Ruiz (CIRAD)

Alexis Dereeper (IRD)

Marilyne Summo (CIRAD)

Transcriptomic data

SignalGenomic expression changes

expressed proteinsTranscriptomic analysis => functions

adaptation

Transcriptomic analysis

High-throughput sequencing :

=> Higher quantity of data. => Lesser cost.

Problematic:

* How to store data ? * How to analyse data ?

Sanger Pyroséquençage 454

1000 seq. 500 000 seq.

Available tools

ESTtik :

« Expressed Sequence Tag Treatment and Investigation Kit »

• Automatic transcriptomic annotation package

• Can manage 454 data

• Integrate the analysis in a complete database and request web interface.

http://esttik.cirad.fr

454 data

Transcripts

Random cutting 200 – 800 bases

454 sequencing => ~380 bases

Transcript contig assembly

Consensus sequence