Facilitating data management and providing tools for automatic data analysis, these software applications address one of the major problems in doing realtime quantitative PCR-based nucleic acid quantification. Nevertheless, successful application of real-time RT-PCR and relative quantification depends on a clear understanding of the practical problems. Therefore a coherent experimental design, application, and validation of the individual real-time RT-PCR assay remains essential for accurate, precise and fully quantitative measurement of mRNA transcripts. An advantage of most described software applications (except SoFAR) is that they are freely available and scientists can use them for their academic research. qBASE intends to be an open source project and interested parties can write their own analysis or visualization plug-ins. All calculation- and statistical-software applications are summarized and described in detail at http://bioinformatics.gene-quantification.info.
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