Difference between revisions of "Sequence Alignments TSD"

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(Blast: test)
(Undo revision 17320 by Reeb (Talk))
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Here some of them are applied for the Hex A protein and analyzed. For the searches non redundant protein databases are used. The outputs are adapted to each other and put in comparison in order to determine the best results. A [[Sequence Alignments Protocol TSD|protocol]] containing the basic steps taken is available.
 
Here some of them are applied for the Hex A protein and analyzed. For the searches non redundant protein databases are used. The outputs are adapted to each other and put in comparison in order to determine the best results. A [[Sequence Alignments Protocol TSD|protocol]] containing the basic steps taken is available.
 
===Blast===
 
===Blast===
<!-- <figure id="fig:tsd_gm2">
 
[[Image:TSD GM2 ganglioside.png|300px|thumb|<caption>TODO</caption>]]
 
</figure> -->
 
 
...
 
Figure <xr id="fig:Agent_LifeCycle#1"/> illustrates the standard agent's life-cycle.
 
...
 
Figure <xr id="fig:Agent_LifeCycle#2"/> illustrates the finer agent's life-cyle,
 
...
 
<figure id="fig:Agent_Life_Cycle">
 
<twocolumns>
 
<subfigure>
 
[[Image:Standard Agent LifeCycle.png|frame|<caption>Standard Agent's Life-Cycle</caption>]]
 
</subfigure>
 
<break>
 
<subfigure>
 
[[Image:Finer Agent LifeCycle.png|frame|<caption>Finer Agent's Life-Cycle</caption>]]
 
</subfigure>
 
</twocolumns>
 
<center><small><caption>Life Cycles of Agent</caption></small></center>
 
</figure>
 
   
 
===PSI-Blast===
 
===PSI-Blast===

Revision as of 18:36, 3 May 2012

Sequence searches

There are several alignment methods provided by various initiatives, who tackle the problem of sequence searches. Here some of them are applied for the Hex A protein and analyzed. For the searches non redundant protein databases are used. The outputs are adapted to each other and put in comparison in order to determine the best results. A protocol containing the basic steps taken is available.

Blast

PSI-Blast

Iterations 2 2 10 10
E-value 0.002 10E-10 0.002 10E-10
Runtime
No. hits

Table 1: Different performances of PSI-Blast.


HHBlits