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Quantitative statistical analysis of standard and human blood proteins from liquid chromatography, electrospray ionization, and tandem mass spectrometry.
- Source :
-
Journal of proteome research [J Proteome Res] 2012 Apr 06; Vol. 11 (4), pp. 2032-47. Date of Electronic Publication: 2012 Mar 15. - Publication Year :
- 2012
-
Abstract
- It will be important to determine if the parent and fragment ion intensity results of liquid chromatography, electrospray ionization and tandem mass spectrometry (LC-ESI-MS/MS) experiments have been randomly and independently sampled from a normal population for the purpose of statistical analysis by general linear models and ANOVA. The tryptic parent peptide and fragment ion m/z and intensity data in the mascot generic files from LC-ESI-MS/MS of purified standard proteins, and human blood protein fractionated by partition chromatography, were parsed into a Structured Query Language (SQL) database and were matched with protein and peptide sequences provided by the X!TANDEM algorithm. The many parent and/or fragment ion intensity values were log transformed, tested for normality, and analyzed using the generic Statistical Analysis System (SAS). Transformation of both parent and fragment intensity values by logarithmic functions yielded intensity distributions that closely approximate the log-normal distribution. ANOVA models of the transformed parent and fragment intensity values showed significant effects of treatments, proteins, and peptides, as well as parent versus fragment ion types, with a low probability of false positive results. Transformed parent and fragment intensity values were compared over all sample treatments, proteins or peptides by the Tukey-Kramer Honestly Significant Difference (HSD) test. The approach provided a complete and quantitative statistical analysis of LC-ESI-MS/MS data from human blood.
- Subjects :
- Chromatography, Liquid statistics & numerical data
Humans
Proteomics statistics & numerical data
Spectrometry, Mass, Electrospray Ionization statistics & numerical data
Statistics as Topic
Tandem Mass Spectrometry
Blood Proteins analysis
Chromatography, Liquid methods
Proteomics methods
Spectrometry, Mass, Electrospray Ionization methods
Subjects
Details
- Language :
- English
- ISSN :
- 1535-3907
- Volume :
- 11
- Issue :
- 4
- Database :
- MEDLINE
- Journal :
- Journal of proteome research
- Publication Type :
- Academic Journal
- Accession number :
- 22316523
- Full Text :
- https://doi.org/10.1021/pr2000013