Abstract:
BACKGROUND:Quantitative polymerase chain reaction (qPCR) is the technique of choice for quantifying gene expression. While the technique itself is well established, approaches for the analysis of qPCR data continue to improve. RESULTS:Here we expand on the common base method to develop procedures for testing linear relationships between gene expression and either a measured dependent variable, independent variable, or expression of another gene. We further develop functions relating variables to a relative expression value and develop calculations for determination of associated confidence intervals. CONCLUSIONS:Traditional qPCR analysis methods typically rely on paired designs. The common base method does not require such pairing of samples. It is therefore applicable to other designs within the general linear model such as linear regression and analysis of covariance. The methodology presented here is also simple enough to be performed using basic spreadsheet software.
journal_name
BMC Bioinformaticsjournal_title
BMC bioinformaticsauthors
Ganger MT,Dietz GD,Headley P,Ewing SJdoi
10.1186/s12859-020-03696-ysubject
Has Abstractpub_date
2020-09-29 00:00:00pages
423issue
1issn
1471-2105pii
10.1186/s12859-020-03696-yjournal_volume
21pub_type
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