The DNA templates from which the RNA molecules could be transcribed were amplified by basic PCR procedure using gene-specific primers (Additional file 1: Table S3).
Some transformant selection procedures use genes that protect the cell from antibiotics while others are genes that protect the cell from herbicides.
In order to account for uncertainty in gene tree estimation, this procedure was repeated 100 times, using gene trees estimated with RAxML from bootstrap sequence alignments.
The functions of several genes of Leishmania have been established using gene targeting procedures [25], [26], [27], [28].
GSTM1 (NM_000561) genotype was determined using a real-time PCR procedure based on Covault and colleagues, using gene specific primers and probe and quantified relative to a two-copy gene control, a region in IVS10 of the breast cancer 1, early onset (BRCA1, NM_007294) gene [21].
The module identification procedure uses one gene at a time ('seed gene') and each combination of conditions in turn and tests whether the expression pattern of the seed gene across these time series may be driven by a regulatory mechanism acting on a number of genes under more than one condition.
When we implemented the feature selection procedure using only MIG genes the performances of the result FLP were not improved (see Supplementary Note 1 in Additional file 5).
The Factor Xa proteolytic site was introduced into PA at the trypsin-sensitive site by a 2-step mutagenesis procedure using a Muta-Gene Phagemid InVitro Mutagenesis kit (BioRad, Hercules, CA).
An alternative bootstrap procedure uses the gene trees themselves as the sampling unit.
A common procedure is to use gene category enrichment analysis on lists of differentially regulated genes to identify biological processes that are affected by a given biological condition.
We also designed an experimental procedure using a mutated GFP gene containing a frameshift mutation that results in a loss of GFP expression.
