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Proteomics Services:
Insightful Solutions, Infinite Potential

Proteomics Services:
Insightful Solutions, Infinite Potential

What is Proteomics and Why It Matters in Protein Analysis

Proteomics is the large-scale study of proteins, enabling the direct and comprehensive analysis of protein abundance and post-translational modification (PTM) levels in biological samples, and helping to elucidate regulatory mechanisms such as protein function and interaction networks. Unlike genomics or transcriptomics, which offer indirect insights, proteomics captures real-time cellular activities and regulatory events. As the direct functional products of genes, proteins play central roles in virtually all biological processes. A single gene may give rise to multiple protein isoforms through alternative splicing or post-translational modifications (PTMs), and the proteome can vary significantly depending on physiological conditions, developmental stages, or environmental stimuli. This dynamic complexity makes proteomics indispensable for uncovering disease mechanisms, identifying biomarkers, and supporting therapeutic development. In the post-genome era, proteomics has become a critical tool for decoding biological systems and addressing research challenges that nucleic acid-based approaches alone cannot resolve.

Advances in proteomics technologies, especially in mass spectrometry proteomics, have enabled more sensitive, accurate, and comprehensive protein analysis, accelerating discoveries across life sciences and medicine. As a leading proteomics service provider, MetwareBio delivers high-quality, full-stack proteomics services tailored to a wide range of research needs. Our proteomics services include global discovery quantitative proteomics using DIA and DDA platforms, as well as specialized solutions such as Blood DIA for blood protein analysis and Low-Input DIA for proteomic profiling of limited or precious samples. We also provide PTM proteomics to investigate key regulatory modifications, including phosphorylation, acetylation, and ubiquitination, along with PRM-based targeted proteomics for precise quantification of proteins in high-precision validation studies. Supported by state-of-the-art instrumentation, streamlined workflows, and expert bioinformatic support, MetwareBio helps researchers unlock deep biological insights with clarity and confidence. Whether for small-scale exploratory studies or large-scale cohort investigations, Metware is committed to delivering high-quality, accurate, and professional proteomics solutions tailored to the unique needs of each client.



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Why Choose MetwareBio for Proteomics Services

At MetwareBio, we deliver cutting-edge proteomics services featuring full-spectrum protein analysis workflows, customized project solutions, and fast turnaround with global logistics support. From advanced sample extraction to high-resolution mass spectrometry and expert data analysis, every step is optimized to ensure exceptional depth, reproducibility, specificity, and sensitivity—empowering researchers with reliable, high-quality results.
Large depth and breadth
Deal with various type of protein samples and detect more proteins with less sample size.
High stability and reproducibility
Obtain consistent and reproducible inter- and intra- assay results for data analysis.
High specificity and accuracy
4D identification/quantification-ion intensity, ion mobility, retention time and m/z.
High resolution and sensitivity
Use acquisition mode of TIMS+PASEF on timsTOF HT mass spectrometry.
Professional extraction and analysis
sample-specific extraction methods and diverse data analysis.


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MetwareBio Proteomics Service Process: From Samples to Report

At MetwareBio, we deliver cutting-edge proteomics services featuring full-spectrum protein analysis workflows, customized project solutions, and fast turnaround with global logistics support. From advanced sample extraction to high-resolution mass spectrometry and expert data analysis, every step is optimized to ensure exceptional depth, reproducibility, specificity, and sensitivity—empowering researchers with reliable, high-quality results.
1
Sample shipment
2
Protein extraction
3
Trypsin digestion
4
Data Acquisition
5
Database search
6
Data analysis

Comprehensive Protein Analysis Results with Bioinformatics Visualization

MetwareBio delivers insightful and publication-ready protein analysis results powered by advanced bioinformatics tools. Our proteomics data includes over 26 types of analyses and 39 graphical visualizations, such as PPI networks, PCA plots, KEGG pathway annotation, and cluster heatmaps. These results support both quantitative proteomics and PTM profiling, helping you uncover meaningful biological insights with confidence. Contact Us for Demo

PPI Network
PCA Analysis
Signal Peptide Prediction
KEGG Pathway Annotation
Subcellular Localization
Correlation Analysis
Cluster Heatmap
WPCNA Analysis

What is Proteomics Used For?

Proteomics is used to characterize and quantify the entire complement of proteins, known as the proteome, present in a biological sample at a given time. This involves identifying individual proteins, determining their abundance, understanding their interactions with other molecules, and elucidating their functions within cellular pathways and networks.

Frequently Asked Questions About Our Proteomics Services

1.What platform do you use for mass spectrometry?
Our proteomics workflows are powered by the Bruker timsTOF HT platform, which combines TIMS (Trapped Ion Mobility Spectrometry) with PASEF (Parallel Accumulation Serial Fragmentation) to achieve ultra-high sensitivity, resolution, and throughput. It enables 4D proteome analysis with excellent depth and precision.
2.What’s the difference between DIA and DDA in quantitative proteomics?
DIA (Data-Independent Acquisition) fragments all detectable precursor ions in a systematic, unbiased manner, resulting in higher reproducibility, improved quantitation accuracy, and greater coverage across samples. It is ideal for comparative and large-scale studies. DDA (Data-Dependent Acquisition) selectively fragments the most intense precursor ions, making it effective for exploratory research but more prone to missing low-abundance proteins and variability between runs.
3.Do you offer TMT or iTRAQ labeled proteomics?
Currently, we do not offer TMT-labeled or iTRAQ-labeled proteomics. Instead, we specialize in label-free quantitative proteomics, which avoids issues like ratio compression, sample mixing artifacts, and labeling cost. Label-free methods are more flexible for handling large sample sizes and diverse sample types without requiring chemical labeling, while still delivering high-quality quantitative results using advanced mass spectrometry and statistical normalization.
4.What post-translational modifications (PTMs) can your proteomics services detect?
Our current PTM proteomics workflows support phosphorylation analysis of serine (S), threonine (T), and tyrosine (Y) residues, as well as acetylation and ubiquitination targeting lysine (K) residues. Additional modifications such as lactylation, succinylation, and glycosylation are under method development and will be available soon.
5.How many proteins can be identified in blood proteomics? How do you improve depth?
Using our Blood DIA proteomics platform, we can identify over 4,000 proteins in plasma or serum. This depth is achieved through magnetic bead-based enrichment of low-abundance proteins, offering higher stability and efficiency compared to antibody-based depletion methods, which are often more variable and limited in scope.
6.What is the minimum sample amount required for low-input proteomics?
Our Low-Input DIA proteomics workflow is highly optimized for trace samples. We can perform reliable quantitative analysis from as little as 1 mg of tissue, 1 µL of blood, 10 oocytes, or 10,000 mammalian cells, enabling protein profiling even in highly limited experimental scenarios.
7.Can your targeted proteomics process IP samples or gel-based samples?
Yes, our PRM-based targeted proteomics supports a wide range of sample types, including IP-enriched eluates, gel bands, gel spots, gel slices, and magnetic bead elution fractions, making it compatible with downstream verification of immunoprecipitation or protein separation workflows.
8.How many proteins can be quantified in targeted proteomics?
Our targeted proteomics assays can be customized based on your experimental goals. We typically support simultaneous quantification of up to 100 proteins or peptides in a single run with high precision and reproducibility.
9.How do you ensure data quality and reproducibility in proteomics analysis?
We implement comprehensive quality control (QC) measures at every stage of the workflow. This includes internal standards such as iRT peptides, reference samples like HeLa cell lysate, and mixed peptide/protein QC pools. These controls help monitor system performance, retention time alignment, and quantification consistency to ensure reliable, reproducible results across batches and projects.
10.What is the typical turnaround time?
Turnaround time varies depending on the project scope, but standard proteomics services typically require 4–6 weeks from sample receipt to data delivery. Express options may be available upon request.

Applications of Proteomics Services

Medical Research
Disease Mechanisms, Molecular Diagnosis, Biomarker Development, Drug Targets
Animal Research
Reproductive Development, Disease Mechanisms, Nutrient Metabolism, Animal Toxicology
Plant Research
Reproductive Development, Abiotic Stress Response, Disease Resistance, Crop Improvement
Microbiology
Pathogenic Mechanisms, Drug Resistance, Stress-Related Proteins Screening, Environmental Impact Mechanisms
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