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Thus, depending on the isolation procedures, gene arrays might also be different.
A typical DCEA workflow involves three successive procedures: gene filtration, link filtration, DCG and DCL identification.
Following the similar procedures, gene expression data collected in cdc15, cdc28, and elu arrest/release experiments were also applied to deduce TFAs.
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To minimize the influence of the stochastic differences during the experimental and sequencing procedures, genes with a variance of copies less than twice of that of the 10 pg replicates were filtered out.
To assess how much ribosomal RNA was represented in each sequence library (i.e. the success of the mRNA enrichment procedure) gene features annotated as rRNAs were extracted from the genome annotation.
Furthermore, due to the SAGE cloning procedure, genes for which the transcripts have no NlaIII site will also be missing.
Prior to the IS-RT-PCR procedure Gene-Frame gaskets (Advanced Biotechnologies, UK) were placed around the sections.
The procedures of gene deleting and tagging were the same as those described previously [28], [49].
Such manipulation requires a skilled operator to reduce the influence of separation procedures on gene expression.
The other procedures of gene manipulation were performed following the standard protocols described by Sambrook et al. [21].
Additionally, improvements in mapping algorithms, normalization procedures, and gene estimate quantification will also aid in reproducibility.
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