Alternative Splicing in the ENCODE Protein complement

1 Introduction 2 Prediction of variant location 3 Prediction of variant function – analysis of the role of alternative splicing in changing function by modulation of functional residues 3.1 Functions associated with alternative splicing 3.2 Functional adaptation through alternative splicing 3.2.1 Tafazzin 3.2.2 Phosphoribosylglycinamide formyltransferase (GARS-AIRS-GART) 3.3 Analysis across the ENCODE dataset 4 Prediction of variant structure 5 Summary of effects of alternative splicing 6 Prediction of principal isoforms 6.1 A series of automatic methods for predicting the principal isoform 6.1.1 Methods 6.1.2 Evaluation of pipeline definitions 7 The ENCODE pipeline – an automated workflow for analysis of human splice isoforms 7.1 Behind EPipe 7.2 Example workflow: IFN alpha/beta receptor protein 7.3 Future perspectives