Computational Proteomics
From spectra to systems — identifying and quantifying proteins and their modifications across conditions.
What this area is.
Proteins are where genotype becomes phenotype. We process mass-spectrometry data to identify and quantify proteins and peptides, then test which ones change and what that means biologically.
Differential abundance, post-translational modifications and pathway enrichment turn raw spectra into systems-level understanding of protein expression and signalling.
Tools & technologies
What we do.
Core methods we apply in computational proteomics.
Spectra processing
Peak picking, calibration and feature detection.
Identification & quant
Peptide/protein ID and label-free or labelled quantification.
Differential abundance
Robust statistics for changing proteins.
PTM analysis
Phosphorylation and other modification mapping.
Pathway & enrichment
Biological interpretation of protein changes.
Systems integration
Linking proteomics to other omic layers.
From data to insight.
How a computational proteomics project flows end to end.
MS run
peptide spectra
Search
peptide–spectrum match
Quantify
protein abundance
Test
differential analysis
PTMs
modification sites
Interpret
pathways & systems
Publication-grade figures.
Interactive, live-rendered visualisations used in computational proteomics.
Where we go deep.
Quantitative proteomics
Accurate, reproducible protein-level quantification.
Post-translational modifications
Mapping the regulatory layer beyond abundance.
Systems & signalling
From protein lists to pathway-level mechanism.
Questions we answer.
A few of the things people ask about computational proteomics — and our short answers. Ask CGB-AI for more.
Why proteomics if you have RNA?
mRNA and protein levels often diverge; proteins (and their modifications) are closer to function and drug action.
What are PTMs?
Post-translational modifications like phosphorylation switch protein activity — a regulatory layer invisible to the genome alone.
Publications in Computational Proteomics.
Drawn from our full record of 173 papers, filtered to this area.
Start a computational proteomics project.
Tell us the biological question and the data you have — we will map out an approach.