Unknown

Dataset Information

0

Statistical analysis of variation in the human plasma proteome.


ABSTRACT: Quantifying the variation in the human plasma proteome is an essential prerequisite for disease-specific biomarker detection. We report here on the longitudinal and individual variation in human plasma characterized by two-dimensional difference gel electrophoresis (2-D DIGE) using plasma samples from eleven healthy subjects collected three times over a two week period. Fixed-effects modeling was used to remove dye and gel variability. Mixed-effects modeling was then used to quantitate the sources of proteomic variation. The subject-to-subject variation represented the largest variance component, while the time-within-subject variation was comparable to the experimental variation found in a previous technical variability study where one human plasma sample was processed eight times in parallel and each was then analyzed by 2-D DIGE in triplicate. Here, 21 protein spots had larger than 50% CV, suggesting that these proteins may not be appropriate as biomarkers and should be carefully scrutinized in future studies. Seventy-eight protein spots showing differential protein levels between different individuals or individual collections were identified by mass spectrometry and further characterized using hierarchical clustering. The results present a first step toward understanding the complexity of longitudinal and individual variation in the human plasma proteome, and provide a baseline for improved biomarker discovery.

SUBMITTER: Corzett TH 

PROVIDER: S-EPMC2814230 | biostudies-literature | 2010

REPOSITORIES: biostudies-literature

altmetric image

Publications

Statistical analysis of variation in the human plasma proteome.

Corzett Todd H TH   Fodor Imola K IK   Choi Megan W MW   Walsworth Vicki L VL   Turteltaub Kenneth W KW   McCutchen-Maloney Sandra L SL   Chromy Brett A BA  

Journal of biomedicine & biotechnology 20100114


Quantifying the variation in the human plasma proteome is an essential prerequisite for disease-specific biomarker detection. We report here on the longitudinal and individual variation in human plasma characterized by two-dimensional difference gel electrophoresis (2-D DIGE) using plasma samples from eleven healthy subjects collected three times over a two week period. Fixed-effects modeling was used to remove dye and gel variability. Mixed-effects modeling was then used to quantitate the sourc  ...[more]

Similar Datasets

2022-09-26 | GSE206454 | GEO
| S-EPMC6697541 | biostudies-literature
| S-EPMC2829365 | biostudies-literature
| S-EPMC3748081 | biostudies-literature
| S-EPMC6242909 | biostudies-literature
| S-EPMC2529402 | biostudies-literature
| S-EPMC4764616 | biostudies-literature
| S-EPMC3606982 | biostudies-literature
| S-EPMC3402908 | biostudies-literature
| S-EPMC7062043 | biostudies-literature