FFPE Quantitative Proteomics Analysis Service
- Disease Mechanism Studies: Elucidating the molecular links between protein expression changes and diseases such as cancer, neurodegenerative disorders, and autoimmune diseases.
- Biomarker Discovery: Identifying differentially expressed proteins from retrospective FFPE samples to support therapeutic target identification.
- Molecular Subtyping and Personalized Medicine: Classifying patient subgroups and assessing prognosis through proteomic expression profiling.
- Drug Target Validation and Mechanism of Action Studies: Investigating protein-level responses in FFPE tissues before and after targeted therapy.
FFPE Quantitative Proteomics Analysis Service refers to the application of advanced proteomics technologies to perform comprehensive qualitative and quantitative protein analysis on tissue samples that have undergone formalin fixation and paraffin embedding (Formalin-Fixed Paraffin-Embedded, FFPE). This service aims to recover proteomic information from limited and complex clinical samples, enabling the investigation of dynamic protein expression changes in relation to phenotypic alterations in biological systems.
As the most commonly used tissue preservation format in pathology and biomedical research, FFPE samples offer the advantage of long-term preservation of tissue morphology and molecular integrity at room temperature. These samples represent a valuable resource for studying disease mechanisms, conducting retrospective clinical investigations, and developing personalized treatment strategies. However, the FFPE process also introduces significant challenges, such as protein crosslinking, chemical modification, and degradation, which hinder effective protein extraction and analysis using conventional proteomics methods. MtoZ Biolabs addresses these challenges by employing a Data-Independent Acquisition (DIA)-based quantitative proteomics approach. With optimized sample preparation protocols and state-of-the-art mass spectrometry and bioinformatics platforms, our service significantly enhances protein identification depth and quantification accuracy in FFPE samples.
Weke K. et al. Anal Chim Acta. 2022.
Leveraging advanced chromatography and mass spectrometry platforms, MtoZ Biolabs offers FFPE Quantitative Proteomics Analysis Service to efficiently extract proteins from FFPE tissue samples and use DIA technology to achieve in-depth quantitative analysis of low-input samples, helping to reveal the key connection between protein expression patterns at the tissue level and disease mechanisms.
Analysis Workflow
FFPE Quantitative Proteomics Analysis Service provides an end-to-end quantitative proteomics workflow:
1. Sample Preprocessing
Paraffin removal, crosslink reversal, protein lysis, and concentration.
2. Protein Digestion and Purification
Proteins are digested with trypsin or Lys-C to generate stable peptide mixtures with balanced sequence coverage.
3. DIA Mass Spectrometry Analysis
High-resolution LC-MS platforms are used to perform DIA scanning, generating comprehensive fragment ion maps.
4. Data Interpretation and Quantification
Sample-specific or reference spectral libraries are constructed for data interpretation, quantitative analysis, and differential expression assessment.
5. Result Delivery
Standard reports, protein expression profiles, differential expression results, enrichment analysis visualizations, and raw data files are provided.
Service Advantages
1. Advanced Analysis Platform: MtoZ Biolabs established an advanced FFPE Quantitative Proteomics Analysis Service platform, guaranteeing reliable, fast, and highly accurate analysis service.
2. One-Time-Charge: Our pricing is transparent, no hidden fees or additional costs.
3. High-Data-Quality: Deep data coverage with strict data quality control. AI-powered bioinformatics platform integrates all FFPE Quantitative Proteomics Analysis data, providing clients with a comprehensive data report.
4. Low Sample Input Requirement: A single FFPE tissue section is sufficient for analysis, making the service ideal for rare or precious samples.
5. High Quantitative Consistency: DIA-MS enables significantly improved data reproducibility across replicates.
Sample Submission Suggestions
Sample Types: FFPE tissue sections, tissue scrolls, or tissue blocks.
Storage and Shipping: Samples should be kept dry and protected from high temperatures; ship at ambient temperature in the dark. If specific labeling is involved, please provide relevant details.
Additional Information: Please include background information such as tissue origin, staining details (if applicable), pathological classification, and anatomical site.
Applications
FFPE Quantitative Proteomics Analysis Service can be applied across multiple fields, including basic research, clinical translation, and drug development:
Deliverables
1. Comprehensive Experimental Details
2. Materials, Instruments, and Methods
3. Total Ion Chromatogram & Quality Control Assessment (project-dependent)
4. Data Analysis, Preprocessing, and Estimation (project-dependent)
5. Bioinformatics Analysis
6. Raw Data Files
Related Services
Quantitative Proteomics Service
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