description
specification
resources
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
references
[1] zhang, y., et al., tissue-based proteogenomics reveals that human testis endows plentiful missing proteins. j proteome res. 2015 sep 4;14(9):3583-94.
[2] chandramouli k, qian py. proteomics: challenges, techniques and possibilities to overcome biological sample complexity. hum genomics proteomics. 2009 dec 8;2009:239204.
how to order
service specification
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
- summary includes all methods and data analysis
- reports provided in excel or pdf format, raw files available upon request
turn around time
- typical 4-5 weeks from sample qc acceptance to data report delivery
sample requirements
| sample type | amount and concentration | minimum sample volume |
|---|---|---|
| protein sample in liquid solution or in gel band/spot | recommended 100 µg for each enzyme: 2 µg/µl | 100 µl for each enzyme |
| protein sample in liquid solution or in gel band/spot | minimum required 10 µg for each enzyme: 1 µg/µl | 10 µl for each enzyme |
data analysis
advanced bioinformatics
- data analysis and validation performed with mascot
- go (gene ontology) category analysis
- cog (cluster of orthologous groups of proteins) category analysis
- pathway analysis