Transcript Gene Expression

Gene Expression
Ilana Granovsky
Jonathan Laserson
Yeast Cluster
http://rana.stanford.edu/
Our Cluster
Finding the Common Ground
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Resemblance in DNA sequence
Resemblance in protein sequence
Regulatory motifs
Conserved regions in proteins
Protein structure
Tools Used
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BLAST
CLUSTALW
PSI-BLAST
MEME
MOTIF
PSIPRED
Sequence Alignment
No significant similarity was found
Protein Pairwise BLAST
• 7 proteins make 21 possible pairs.
• Only few pairs showed resemblance, with
very high expectancy.
Regulatory Motifs
• We used MEME to find motifs in the DNA
sequence prior to the beginning of each
gene.
• Result: no motifs were found.
Regulatory Motifs
• We used MEME to find motifs inside each
gene.
Motif Description
1. Cap signal for transcription initiation
2. Heat shock factor
http://www.motif.genome.ad.jp/
Conserved Regions in Proteins
• No motifs were found which shared more
than 2 sequences
• Attempts to divide the proteins to distinct
sub-groups also brought no improvement
Secondary Structure
• No apparent similarity was found
Conclusions
• Similarity was found in DNA sequence
motifs
• These motifs allow rapid transcription of
the genes in specific situations
• No other similarity was found
Future Analysis
• There is no alternative to lab
experiments!
thanks
To Varda