Top-Down Proteomics of Zebrafish Brain Regions Using Capillary Zone Electrophoresis-Tandem Mass Spectrometry

). Gene Ontology analysis of the differentially expressed proteoforms between regions revealed region-specific biological process enrichment, i.e., innate immune response and chromatin organization in Cer, actin organization in Med, microtubule-based processes in Tele, and axonogenesis in Tec/Hab. Comparing quantitative TDP and bottom-up proteomics data from the four zebrafish brain regions revealed substantial discrepancies between proteoform-specific and protein-group-specific data sets, highlighting the value of spatially resolved TDP of brains for better understanding of protein function in a proteoform-specific manner.