Proteome Profiling

Service Description

Proteome profiling analysis refers to the analysis of an entire proteome from complex samples like complete cells, tissues and body fluids. It is most often used to identify as many peptides and proteins as possible. Proteome profiling analysis based on mass spectrometry (MS) can provide reference information for high-throughput quantitative proteomics and protein modification analysis.

Project Workflow

Proteome Profiling
Proteome profiling is a cost effective, high value solution for monitoring hundreds-to-thousands of proteins simultaneously.

We perform sample digestion using sequencing-grade trypsin or alternative proteolytic method, and then trypsin-digested peptide samples are analyzed using nano-flow LC-MS/MS. The spectral counting method provides information on protein relative abundances1. Besides, our HPLC sample fractionation systems are highly recommended for complex sample types to reduce sample complexity and maximize protein sequence coverage and detection dynamic range2.

  • Sample preparation
  • LC fractionation
  • LC-MS/MS analysis
  • Data analysis


[1] Zhang, Y., et al., Tissue-Based Proteogenomics Reveals that Human Testis Endows Plentiful Missing Proteins. Journal of Proteome Research, 2015. 14(9): p. 3583-3594.
[2] Chandramouli, K. and P.Y. Qian, Proteomics: challenges, techniques and possibilities to overcome biological sample complexity. Hum Genomics Proteomics, 2009. 2009

How to order

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Service Specification

  • Sample Preparation and Services

    Sample Preparation and Services

    • Digestion performed using sequencing-grade trypsin
    • Off-line sample fractionation using HPLC technology
    • Each fraction analyzed using nano-flow LC-MS/MS
    • Peptide Spectral Match (PSM) data utilized for constructing proteomic profile
  • Quality Standard

    Quality Standard

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

    Turn Around Time

    • Typical 4-5 weeks from sample QC acceptance to data report delivery

Sample type

Sample type

Recommend Amount


Animal internal organs (heart, liver, spleen, lung, kidney), skin, muscle, brain, etc

≥ 10 mg


Mollusks (Toxoplasma, Schistosomiasis, Drosophila, Acarid, Plutella xylostella, Laodelphax, Cestode, Cicada, Hematodinium, etc.)

≥ 10 mg


Suspended cells, adherent cells

≥ 1×10^7


Cell culture supernatant

≥ 20 mL


Exosome isolated by customer

≥ 100 µg, ≥ 0.5 µg/µL


Plasma, serum (remove highly-abundant protein)

≥ 200 µL


Amniotic fluid, cerebrospinal fluid, semen, etc. (remove highly-abundant protein)

≥ 1 mL


Amniotic fluid, cerebrospinal fluid, semen, etc. (with highly-abundant protein)

≥ 200 µL


Saliva, milk

≥ 200 µL



≥ 50 mL



≥ 25 µL


Twigs of plants (leaf buds, tender leaves), algae

≥ 500 mg


Old leaves, roots, stems, bark of plants

≥ 1 g


Plant buds, pollen

≥ 100 mg

Data Analysis


  • Data analysis and validation performed with Mascot

  • GO (Gene ontology) category analysis

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

  • Pathway analysis


We care for your samples from the start through to the result reporting. Highly experienced laboratory professionals follow strict quality procedures to ensure the integrity of your results.

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