Journal
JOURNAL OF PROTEOME RESEARCH
Volume 7, Issue 8, Pages 3091-3101Publisher
AMER CHEMICAL SOC
DOI: 10.1021/pr070520u
Keywords
analysis of variance; ANOVA; iTRAQ; mass spectrometry; differential expression
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Funding
- NCRR NIH HHS [P20 RR017696, P20 RR 017696] Funding Source: Medline
- NHLBI NIH HHS [N01HV28181, N01 HV 28181] Funding Source: Medline
- NIDCR NIH HHS [R01 DE 016353, K25 DE 016863, K25 DE016863-03, R01 DE016353, K25 DE016863] Funding Source: Medline
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We describe biological and experimental factors that induce variability in reporter ion peak areas obtained from iTRAQ experiments. We demonstrate how these factors can be incorporated into a statistical model for use in evaluating differential protein expression and highlight the benefits of using analysis of variance to quantify fold change. We demonstrate the model's utility based on an analysis of iTRAQ data derived from a spike-in study.
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