Prediction of PDZ Domain-Peptide Binding Affinity from Primary Sequence
This data is supplementary material for :
Prediction of PDZ Domain-Peptide Binding Affinity from Primary Sequence
Xiaojian Shao1,2,4, Chris S. H. Tan2,4, Courtney Voss3, Shawn S. C. Li3, Naiyang Deng1*, Gary D. Bader2*
1. College of Science, China Agricultural University, Beijing, China,
2. Banting and Best Department of Medical Research, University of Toronto, Terrence Donnelly Centre for Cellular and Biomolecular Research, Toronto, Canada
3. Department of Biochemistry, University of West Ontario, London, Ontario, Canada
4. These authors contributed equally to this work.
* To whom correspondence should be addressed. E-mail: gary.bader@utoronto.ca (GDB); dengnaiyang@cau.edu.cn (NYD)
Supplemental Materials
Supplementary Materials.doc - Supplementary Method and Figure S1-5 with legends
Supplemental Tables
Table S1 - Quantitative Mouse PDZ Domain-peptide Interaction Matrix
Table S2 - Performance on Different Encoding
Table S3 - Performance on Random Binding Sites
Table S4 - Quantitative Human Scribble PDZ Domain-peptide Interaction Matrix
Table S5 - Blinding Testing on Worm and Fly
Table S6 - Performance of SemiSVR on Semi-Quantitative Assessment
Table S7 - Predicted Affinity Score for Putative Human PDZ Domain-peptide Pairs
Table S8 - Predicted Affinity Score for Putative Mouse PDZ Domain-peptide Pairs
Semi-quantitative Support Vector Regression Code
SemiSVR_code.Zip - Matlab code for SemiSVR (compressed).
PDZ Sequence
Mouse PDZ sequence : MousePDZSequence.fasta
Human Scribble PDZ sequence : HumanScribblePDZSequence.fasta
C. elegens PDZ sequence : CelegansPDZSequence.fasta
D. melanogaster PDZ Sequence : Fly_PDZSequence.fasta
SemiSVR Predictable Human PDZ Sequence : SemiSVR_Predictable_HumanPDZSequence.fasta
SemiSVR Predictable Mouse PDZ Sequence : SemiSVR_Predictable_MousePDZSequence.fasta