A sliding window of 20 genes, minimum number of three genes expected per cluster and Benjamini&Hochberg correction for multiple testing were applied for statistical analysis.
Even if the phylogeny and its interpretation are absolutely accurate, 77 genes are the minimum number of genes that occurred in the MRCA of Drosophila, because of the possibility that ancestral genes have been lost in all 12 genomes studied here.
Thus, in this paper, we can also assume that at least 29,000 genes were needed to orchestrate the complete sweetpotato root development, and the detected specific and shared expressed genes represented the minimum number of genes that were active during root development.
We investigated the hypothesis of amplifying paralogous copies of nuclear genes by assessing the minimum number of gene duplications and extinctions that are required to generate the observed discordant pattern with the help of the GeneTree 1.3.0 software [ 97, 98].
Ranking based on the expression stability from qRT-PCR data of the candidate control genes and estimation of the minimum number of genes needed for nomalization showed that the fewest, most stably expressed genes needed for acurate normalization in RNA expression studies of human whole blood is a combination of TRAP1, FPGS, DECR1 and PPIB.
It can be speculated that, in order to preserve homeostasis, only a minimum required number of genes is activated during AOM.
The following AmiGO program settings were used: "Database Filter": "TAIR"; "Maximum p-value": "0.01"; Minimum number of gene products": "10% of input gene set".
A subnetwork was built from these 753 genes by adding the minimum number of linker genes required to form fully connected networks involving these genes.
In practice, the approach we have adopted is to set the lower limit of this range to one and the upper limit is determined by the maximum value of p that gives rise to clusters that have a minimum number of genes (for example, a minimum of five genes).
