The peptide-centric analysis requires spectral assay libraries that allow for the extraction of quantitative data in mass spectrometry-based methods, including data-independent acquisition (DIA), parallel reaction monitoring (PRM), or selected reaction monitoring (SRM). Such spectral libraries have been generated for humans (pan-human, T-cells, HLA subtypes) and other organisms such as mouse, E. coli, zebrafish, S. aureus, M. tuberculosis, etc. Here, we focused on the pig (Sus scrofa), a biomedical model capable of recapitulating the complexity of human pathology. We analyzed brain tissues and cerebrospinal fluids from a transgenic minipig model of Huntington's disease subjected to multiple extraction and fractionation steps. We generated a porcine spectral library for 8,321 proteins and demonstrated that this library provides a valuable resource to confidently and reproducibly quantify porcine proteins at the proteome-wide level. Via targeted assays, it enables the quantification of selected proteins with a key role not only in neuroscience.