Label-free DIA Quantitation

Service Description

We have developed innovative solutions for optimizing the process of accurately quantifying proteins in complex biological matrices and other complex mixtures.


Label-Free DIA Quantitative Proteomics

Data-Independent Acquisition (DIA) is a label-free quantitative technique which provides highly consistent quantitation and broad proteome coverage1. We create a customized spectral library with your specific sample and then analyze individual samples using nano-flow LC-MS/MS with DIA scanning and quantitation2.

Label-Free DIA Quantitative Proteomics service is ideal for long-term projects or projects with large sample sets which require accurate and reproducible quantitation.

Project Workflow

Pooled samples

Individual samples

Sample preparation

HPLC-UV Fractionation

LC-MS/MS DDA Analysis

DDA library generation and updates

LC-MS/MS DIA analysis

Quantitation and bioinformatics



[1]. Wong, J. W. H., & Cagney, G. (2009). An Overview of Label-Free Quantitation Methods in Proteomics by Mass Spectrometry. Proteome Bioinformatics, 273–283.doi:10.1007/978-1-60761-444-9_18.


[2]. Searle BC, Pino LK, Egertson JD, Ting YS, Lawrence RT, MacLean BX, Villén J, MacCoss MJ. Chromatogram libraries improve peptide detection and quantification by data independent acquisition mass spectrometry. Nat Commun. 2018 Dec 3;9(1):5128. doi: 10.1038/s41467-018-07454-w.

How to order

Request a Quote

Send us a no obligation request for quote and our dedicated sales team will reply to you within 24 hours.

Create an Online myBGI Account

Create a myBGI account to view all our sample and shipping documentation and to manage your project moving forwards. It's quick, free and easy!

Mass Spectrometry Service Specification

Label-Free DIA Quantitative Proteomics services are performed using nano-flow liquid chromatography and high resolution Orbitrap mass spectrometry.

  • Sample Preparation and Services

    Sample Preparation and Services

    • Digestion performed using sequencing-grade trypsin or alternative proteolysis
    • DDA-Spectral Library generated using UHPLC-UV technology and sample fractionation
    • 180 min nano-flow LC-MS/MS using a Q Exactive HF-X Orbitrap mass spectrometer
  • Mass Spec Services Quality Standard

    Mass Spec Services Quality Standard

    • Summary including all methods and data analysis
    • Reports provided in Excel or PDF format, RAW files available upon request
  • Turn Around Time

    Turn Around Time

    • Typical 20 working days from sample QC acceptance to data report delivery

Sample Requirements

We accept protein samples in a variety of formats. For attaining maximum proteome coverage we recommend utilizing our sample fractionation services, performed using our off-line UHPLC-UV platform.

Sample type Amount and Concentration Minimum sample volume
Protein sample in liquid solution Recommended 400 µg with fractionation; 2 µg/µL 200 µL
Minimum Required 100 µg with fractionation; 1 µg/µL 100 µL

Data Analysis

Advanced Bioinformatics

  • GO (Gene ontology) category analysis

  • COG (Cluster of Orthologous Groups of proteins) category analysis

  • Pathway analysis

  • DEPs (differentially expressed proteins) cluster analysis

  • DEPs GO enrichment analysis

  • DEPs pathway enrichment analysis

Label-Free DIA Quantitative Proteomics Resources

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