Proteomics is the large-scale study of the proteome — the complete set of proteins expressed by a genome, cell, tissue, or organism at a given time. Unlike genomics, which studies static DNA sequences, proteomics captures dynamic protein expression, interactions, modifications, and localization — making it essential for understanding complex biological systems and disease states.

Our Advanced Proteomics Capabilities

1. Shotgun / Discovery Proteomics

High-throughput identification of thousands of proteins in complex samples using data-dependent acquisition (DDA). Ideal for unbiased proteome profiling, differential expression analysis, and novel protein discovery.

2. Quantitative Proteomics

• Label-Free Quantification (LFQ) – Cost-effective, accurate quantification without chemical labeling
• TMT / iTRAQ Multiplexing – Up to 18-plex relative quantification for high-throughput comparative studies
• SILAC – Metabolic labeling for cell culture-based quantitative proteomics

3. Post-Translational Modification (PTM) Analysis

Specialized workflows for phosphorylation, acetylation, ubiquitination, glycosylation, and other PTMs using enrichment strategies (TiO₂, IMAC, antibody-based) followed by high-resolution LC-MS/MS.

4. Targeted Proteomics (PRM / MRM)

Highly sensitive and specific quantification of selected proteins/peptides using Parallel Reaction Monitoring (PRM) or Multiple Reaction Monitoring (MRM) on triple quadrupole or high-resolution instruments.

Our Proteomics Workflow

1. Project Consultation & Experimental Design – Defining biological question, sample type, and statistical power
2. Protein Extraction & Sample Preparation – Optimized protocols for cells, tissues, biofluids, and FFPE samples
3. Enzymatic Digestion – Trypsin, Lys-C, or multi-protease digestion strategies
4. Peptide Fractionation & Enrichment – High-pH RP fractionation, PTM-specific enrichment
5. High-Resolution LC-MS/MS Analysis – Using Orbitrap or Q-TOF platforms
6. Data Analysis & Interpretation – MaxQuant, Proteome Discoverer, Perseus, and custom R/Python pipelines
7. Biological Interpretation & Reporting – Pathway analysis (KEGG, Reactome), GO enrichment, protein-protein interaction networks

Key Applications of Our Proteomics Services

• Biomarker discovery in cancer, neurodegenerative, and metabolic diseases
• Drug target identification and mechanism of action studies
• Proteome profiling of disease vs. healthy states
• Host-pathogen interaction studies
• Quality control of recombinant proteins and biologics
• Plant proteomics and agricultural biotechnology

Technologies & Tools We Use

• High-resolution mass spectrometers (Orbitrap Exploris / Q Exactive series)
• Nano-flow liquid chromatography systems
• MaxQuant, Proteome Discoverer, Spectronaut, DIA-NN for data processing
• Perseus, STRING, Cytoscape for downstream bioinformatics
• Integration with genomics and transcriptomics for multi-omics studies

Why Choose Yaazh Xenomics for Proteomics?

• Expert team with strong background in mass spectrometry-based proteomics
• State-of-the-art instrumentation and optimized workflows
• Robust quality control and reproducible results
• Advanced bioinformatics support with biological interpretation
• Fast turnaround time and competitive pricing
• End-to-end support from experimental design to publication