Difference between revisions of "Sequence-based analyses of ARS A"
From Bioinformatikpedia
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=== Prediction of Disordered Regions === |
=== Prediction of Disordered Regions === |
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| − | ==== SignalP ==== |
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| − | <code>sudo /apps/signalp-3.0/signalp -t gram- ../BACR.fasta > BACR.signalp</code> <br/> |
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| − | <code>sudo /apps/signalp-3.0/signalp -t euk ../ARSA.fasta > ARSA.signalp </code> <br/> |
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| − | <code>sudo /apps/signalp-3.0/signalp -t euk ../A4.fasta > A4.signalp</code> <br/> |
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| − | <code>sudo /apps/signalp-3.0/signalp -t euk ../LAMP1.fasta > LAMP1.signalp</code> <br/> |
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| − | <code>sudo /apps/signalp-3.0/signalp -t euk ../INSL5.fasta > INSL5.signalp</code> <br/> |
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| − | <code>sudo /apps/signalp-3.0/signalp -t euk ../RET4.fasta > RET4.signalp</code> <br/> |
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==== DISOPRED ==== |
==== DISOPRED ==== |
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=== Prediction of transmembrane alpha-helices and signal peptides === |
=== Prediction of transmembrane alpha-helices and signal peptides === |
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| + | |||
| + | ==== SignalP ==== |
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| + | |||
| + | <code>sudo /apps/signalp-3.0/signalp -t gram- ../BACR.fasta > BACR.signalp</code> <br/> |
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| + | <code>sudo /apps/signalp-3.0/signalp -t euk ../ARSA.fasta > ARSA.signalp </code> <br/> |
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| + | <code>sudo /apps/signalp-3.0/signalp -t euk ../A4.fasta > A4.signalp</code> <br/> |
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| + | <code>sudo /apps/signalp-3.0/signalp -t euk ../LAMP1.fasta > LAMP1.signalp</code> <br/> |
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| + | <code>sudo /apps/signalp-3.0/signalp -t euk ../INSL5.fasta > INSL5.signalp</code> <br/> |
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| + | <code>sudo /apps/signalp-3.0/signalp -t euk ../RET4.fasta > RET4.signalp</code> <br/> |
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=== Prediction of GO Terms === |
=== Prediction of GO Terms === |
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Revision as of 15:46, 25 May 2011
Contents
Additional Proteins
The following proteins are additionally used for the prediction of transmembrand alpha-helices and signal peptides and for the prediction of GO Terms:
Secondary Structure Prediction
DSSP
Prediction of Disordered Regions
DISOPRED
POODLE
IUPRED
Meta-Disorder
Prediction of transmembrane alpha-helices and signal peptides
SignalP
sudo /apps/signalp-3.0/signalp -t gram- ../BACR.fasta > BACR.signalp
sudo /apps/signalp-3.0/signalp -t euk ../ARSA.fasta > ARSA.signalp
sudo /apps/signalp-3.0/signalp -t euk ../A4.fasta > A4.signalp
sudo /apps/signalp-3.0/signalp -t euk ../LAMP1.fasta > LAMP1.signalp
sudo /apps/signalp-3.0/signalp -t euk ../INSL5.fasta > INSL5.signalp
sudo /apps/signalp-3.0/signalp -t euk ../RET4.fasta > RET4.signalp
