PON-Del predictor for short protein deletions


PON-Del is a predictor for short (1-10 amino acid) deletions. It was trained on an extensive set of variations and showed superior performance compared to other tools. A machine learning algorithm, LightGBM, was used to train PON-Del. Only sequence retaining deletions will be predicted.

Input deletions

Deletion type
Note: Maximum 100 lines allowed. Deletions starting at position 1 will return N/A.
Prediction log

              

            

          

          

            

              
Prediction results

              

                

              

              
Note: Deletions starting at position 1 return N/A because deletion of the first amino acid (usually methionine) may prevent normal protein expression and are beyond the scope of the current prediction model.

            

          

        

      

      

        

          

          

            

              
Single amino acid deletions

            

            

              
This page provides precalculated results for all possible single amino acid deletions in proteins coded by MANE transcripts.

              
You can search the data in several different ways.

            

          

          

        

        

          

            
            

              
Select identifier

              
1. Choose identifier type

              

                
                

                  

                    

                      
                    

                    

                      
                    

                    

                      
                    

                    

                      
                    

                    

                      
                    

                    

                      
                    

                  

                

              

              
2. Enter ID

              

                
                

                  
                  
                

              

              
              

 Note:
 PON-Del is developed based on MANE selectedRefSeq protein identifiers. 

 If you select a different identifier type, the corresponding RefSeq protein will be displayed. 

 The one-to-one mapping is defined by the MANE v1.4.

            

          

          

            

              
Predicted deletion pathogenicity

              

                

              

            

          

        

        

          

            

              
Heatmap for predicted pathogenicity

              

            

          

        

      

      

        

          

          

            

              
About

              
Flowchart of PON-Del

              

                PON-Del Overview
              

              
Datasets for PON-Del

              

                The datasets used for training and testing the tool are available here: 
                data_pondel.csv
              

              
Citing PON-Del

              
A manuscript describing the predictor has been submitted. In the meantime use URL for citation.

              
Contact

              
If you have any problems, please contact Haoyang (haoyang.zhang@med.lu.se) or Mauno (mauno.vihinen@med.lu.se).