Label-Free-Based Quantitative PTM Service

MtoZ Biolabs relies on advanced high-resolution mass spectrometry platforms, including Orbitrap Fusion Lumos and Q Exactive HF, combined with an independently optimized quantitative analysis workflow and a comprehensive bioinformatics system to establish a highly sensitive and reproducible Label-Free-Based Quantitative PTM Service that provides research institutions and pharmaceutical companies with integrated solutions covering sample preparation, modified peptide enrichment, quantitative analysis, and functional interpretation to help clients efficiently reveal dynamic protein modification changes and their regulatory mechanisms.

Technical Principle

Label-Free quantification is a quantitative approach that does not rely on stable isotope or chemical labeling. It determines relative abundance differences by detecting ion intensity, retention time, and spectral count features of peptides or modified peptides across samples using mass spectrometry. This method, combined with high-resolution LC-MS/MS analysis and rigorous quantitative normalization workflows, ensures stability and accuracy of the results. Its core advantage lies in eliminating the need for additional labeling steps, allowing direct analysis of tissues, cells, serum, or other complex biological samples. It is particularly suitable for parallel comparison of multiple sample groups and dynamic monitoring of biological responses.

 

Figure 1. Label Free Quantitative PTM Analysis Workflow

Analysis Workflow

1. Protein Extraction and Digestion: Extract total protein and digest into peptides using trypsin.

2. Modified Peptide Enrichment: Select the most suitable enrichment strategy for the target modification type to improve detection sensitivity.

3. Mass Spectrometry Analysis: Use high-resolution LC-MS/MS to acquire peptide ion signals.

4. Quantification and Data Processing: Calculate relative quantification based on peak areas and identify modification sites through database searching and multi-engine validation.

5. Functional Annotation and Visualization: Integrate differential analysis, GO/KEGG annotation, and network construction to generate a comprehensive data report.

 

Service Advantages

1. Multi-Platform Mass Spectrometry Support

We are equipped with multiple high-resolution mass spectrometry platforms, including Orbitrap Fusion Lumos and Q Exactive HF, enabling flexible instrument selection based on sample characteristics and experimental requirements. This ensures optimal balance between sensitivity, resolution, and throughput to meet the diverse needs of scientific and pharmaceutical research.

 

2. Broad Sample Compatibility

Label-Free quantification eliminates the need for stable isotope or chemical labeling, simplifying experimental preparation. It supports a wide range of sample types, including cells, tissues, serum, and cerebrospinal fluid, and is especially suited for studies involving multiple conditions or time points.

 

3. Experienced Professional Team

The core technical team of MtoZ Biolabs consists of experts with extensive experience in proteomics and PTM research. Our scientists are proficient in multiple modification analysis strategies and have long served domestic and international research institutions and pharmaceutical companies, ensuring strong technical competence and project management capability.

 

4. Integrated End-to-End Solution

MtoZ Biolabs offers complete workflow support from sample preparation, modified peptide enrichment, and mass spectrometry detection to data analysis. All steps are conducted within our high-standard internal laboratory system to ensure project consistency, data integrity, and elimination of inter-platform variation.

 

Applications

1. Cell Signaling Pathway Research: Analyze dynamic modification changes under different stimuli or drug treatments.

2. Disease Mechanism Studies: Identify abnormal modification patterns associated with disease states to support biomarker discovery.

3. Drug Target Analysis: Reveal the regulatory effects of candidate compounds on modification networks and signaling pathways.

4. Systems Biology and Network Modeling: Build multi-modification regulatory models to explore complex biological control mechanisms.

 

Sample Submission Suggestions

1. Sample Type: Cells, tissues, serum, plasma, or purified protein samples.

2. Sample Condition: Lyophilized powder or frozen lysate, avoiding repeated freeze-thaw cycles.

3. Sample Amount: Recommended total protein ≥200 μg; for low-abundance samples, adjustments can be made as needed.

4. Buffer System: Avoid buffers containing high salt concentrations, SDS, or strong ionic detergents.

5. Additional Information: Provide experimental design, treatment conditions, and target modification type.

 

MtoZ Biolabs provides detailed sample preparation and submission guidelines to ensure smooth project execution.

 

Deliverables

1. Complete experimental plan and quality control report

2. List of modified proteins and modification sites

3. Relative quantification results for proteins and modified peptides

4. Differential analysis, functional annotation, and pathway enrichment report

5. Raw mass spectrometry data files (RAW/mzML) and standardized processed results

 

MtoZ Biolabs leverages high-resolution mass spectrometry platforms, standardized workflows, and a professional analytical team to provide scientifically rigorous and reproducible Label-Free-Based Quantitative PTM Service. Whether your research focuses on modification network analysis or target mechanism exploration, we deliver comprehensive support from experimentation to data interpretation. Contact MtoZ Biolabs today to begin your quantitative post-translational modification research journey.