SNPs&GO
 
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SNPs&GO
Predicting disease associated variations using GO terms


Sequence File: SP.seq
Alignment File: SP.seq.blast
Output File: output.txt





Mutation
Prediction
RI
Probability
Method

Disease
3
0.654
PhD-SNP: F[R]=58% F[H]=0% Nali=761
 
Disease
3
0.672
PANTHER: F[R]=64% F[H]=1%
 
Neutral
0
0.476
SNPs&GO



Mutation: WT+POS+NEW
    WT: Residue in wild-type protein
    POS: Residue position
    NEW: New residue after mutation

Prediction:
    Neutral: Neutral variation
    Disease: Disease associated variation

RI: Reliability Index

Probability: Disease probability (if >0.5 mutation is predicted Disease)

Method: SVM type and data
    PANTHER: Output of the PANTHER algorithm
    PhD-SNP: SVM input is the sequence and profile at the mutated position
    SNPs&GO: SVM input is all the input in PhD-SNP, PANTHER and GO terms features

F[X]: Frequency of residue X in the sequence profile
Nali: Number of aligned sequences in the mutated site
 
 
 
 
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