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"You'd think that the fusion of gametes would be so basic that it would important to conserve" over evolutionary time, said Dr. Swanson.
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HHpred and HHalign combine secondary structure information (conserved over much larger evolutionary distances) with sequence information.
To identify sites in 5'UTRs associated with transcript abundance, we performed a search for evolutionarily conserved over-represented sequence elements using the SiteBD program.
The identification of positionally conserved over-represented upstream motifs throws light on putative regulatory elements for transcription in Pf.
We applied two pattern finding algorithms MEME [ 9] and AlignACE [ 10] to identify conserved, over-represented DNA motifs.
Identifying conserved over-represented motifs by ordering genes in this manner may indicate regulatory control for a particular motif.
The study identifies positionally conserved, over-represented motifs in the upstream regions of functionally related, co-expressed Pf genes.
* conserved over-represented oligo oPOSSUM [ 43] is able to evaluate the over-representation of known TFBS on human/mouse conserved regions.
We undertook a computational approach to identify conserved, over-represented DNA motifs in the intergenic regions of the genome that could serve as putative cis-regulatory elements.
We have applied two pattern finding algorithms MEME and AlignACE to identify conserved, over-represented motifs in the 5' upstream regions of genes in C. parvum.
Thus, one explanation for this observation is that functional non-conserved sequences are detectably conserved over shorter evolutionary distances.
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