Posttranslational modification

Gene

Translational research

Variety (cybernetics)

Biotechnology

Artificial intelligence

Workflow

Enzyme

Pure mathematics

Data science

Mathematics

Computer science

Proteomics

Biochemistry

Bioinformatics

Computational biology

Database

Biology

Field (mathematics)

Proteomes

Proteomics is the field of study that includes the analysis of proteins, from either a basic science prospective or a clinical one. Proteins can be investigated for their abundance, variety of proteoforms due to post-translational modifications (PTMs), and their stable or transient protein–protein interactions. This can be especially beneficial in the clinical setting when studying proteins involved in different diseases and conditions. Here, we aim to describe a bottom-up proteomics workflow from sample preparation to data analysis, including all of its benefits and pitfalls. We also describe potential improvements in this type of proteomics workflow for the future.

A Critical Review of Bottom-Up Proteomics: The Good, the Bad, and the Future of This Field