FFPE Proteomics

FFPA Proteomics

Proteomics studies are usually based on proteins obtained from fresh tissues, body fluids or cultured cells in vitro. However, the number of fresh or frozen tissues that can be used in longitudinal studies over many years is very limited. With the advancement of medical research, there is a growing need for proteomics research into diseases that progress slowly or malignancies that have longer times between treatment and relapse.
Most samples in hospitals or tissue sample banks are formalin-fixed paraffin-embedded (FFPE) samples. The key advantage of FFPE samples is that they can be stored steadily for decades at room temperature. Billions of FFPE cancer samples have been collected and stored, and these are usually accompanied with long-term and detailed clinical follow-up information, such as clinical course, treatment response, recurrence and survival. This information is of key importance for the new classification of tumors, exploring disease mechanisms, finding new therapeutic targets and for understanding long term prognosis..

Mass Spectrometry Service Specification

FFPE Proteomics services are performed using nano-flow liquid chromatography and cutting-edge Q Exactive HF/HF-X mass spectrometer.

Sample Preparation and Services

The QC analysis of enzymatic hydrolysis is strictly controlled by LC-MS

DDA-Spectral Library generated using HPLC technology and sample fractionation

Quality Standard

Summary includes all methods and data analysis

Reports provided in Excel or PDF format, RAW files available upon request

Turn Around Time

Typical 5-6 weeks from sample QC acceptance to data report delivery

Research Applications

 

• Pathogenic mechanism studies of cancer cell or tumor tissues
• Disease biomarker research
• Target drug screening
• Subcellular structure research of tumor microenvironments

 

 

 

  • The QC analysis of enzymatic hydrolysis is strictly controlled by LC-MS
  • DDA-Spectral Library generated using HPLC technology and sample fractionation
  • Summary includes all methods and data analysis
  • Reports provided in Excel or PDF format, RAW files available upon request
  • Typical 5-6 weeks from sample QC acceptance to data report delivery

Please see the catalogue

  • Data analysis and validation performed with Mascot
  • Protein identification and quantification list
  • Differential proteins data statistics and volcano plot
  • Principal component analysis (PCA) and cluster analysis
  • Protein GO/COG/KOG/Pathway annotation
  • GO/COG/KOG enrichment analysis of differential proteins
  • Protein-protein interaction analysis
  • Protein subcellular localization analysis
  • Time series analysis
  • Repeatability analysis

Unique DNBSEQ™ Sequencing Technology

BGI’s RNA Sequencing services are typically executed with proprietary DNBSEQ™ sequencing technology platforms, for great sequencing data at some of the lowest costs in the industry. DNBSEQ™ offers advantages in terms of lower amplification error rates and much lower duplication rates. In addition, studies have shown the lower index hopping rate in DNBSEQ™ platforms.