I have tried the glass bead as well as sonication method but could not get good results. Can anyone suggest to me any other effective protocol as I will be carrying out 2D electrophoresis?
you can try to isolate your protein using Mg/Chaps method or with Tris -EDTA method. If you would not get your protein then firstly standardised your protein by enrichment. The paper linked below could help you at some extent.