Provided are methods and systems for recovering protein product powder, purified water and omega-3 oil from an animal tissue. The methods and systems use high throughput extraction filtration separation systems. Animal tissue, for example fish, and organic solvent are directly or indirectly transferred into one of the optional extraction or filtration systems. The extraction-filtration systems provide a high degree of filtration performance and product washing efficiency. Each system ultimately yields a product wet cake that includes the protein product. The protein product wet cake is then further dried in a drying unit to yield the final protein powder product. In each system, the process filtrates undergo further processing by filtration and distillation to recover the organic solvent and separate out the omega-3 fish oil. The recovered organic solvent can be recycled back into the process. Solid protein product powder is thus recovered, along with omega-3 oil, purified water and recovered solvent.
