Design of the custom microarray was done at Imaxio (http://www.avidis.fr/index.php) and 12,305 oligonucleotides were added in this specific region, allowing an average resolution of 642 bp between two consecutive oligonucleotides (centromeric region was excluded).
A high-throughput gene expression analysis, by DNA oligonucleotide microarray was done with three months old C57Bl/6 mice irradiated with 0.2 and 1 Gy of mono-energetic 14 MeV neutron compared to sham irradiated controls.
The labelling of the cDNA for microarray was done using Micromax Direct Labelling kit (Perkin Elmer Life Sciences Inc. USA) according to manufacturer's instructions.
cDNA microarrays were done to determine and compare the native expression levels of various cell cycle proteins expressed in G0-G1, S, G2-M phases and other upstream molecules, in both glioma and their treatment with hUCBSC.
First strategy, the same analyses with 48 microarrays were done again twice: one not using the total number of genes (i.e. 22 283 gene probesets) but only the 25% of the genes that showed the largest variance; and another using only the 25% of the genes that showed the highest signal.
Reverse transcription into cDNA, labeling of cDNA, hybridization and scanning of the microarrays were done according to the manufacturers' protocols.
RNA extractions, amplification and labelling of RNA preparations, microarray hybridizations, as well as washing and scanning of microarrays were done as previously described [ 12, 13].
The genes from each publication are listed in Supplementary file 1. RNA-extraction and hybridization to microarrays were done as previously described [ 23].
Microarrays were done in two (single mutants) or four (double mutants) replicate experiments, including both dye-swap technical replicates or/and biological replicates.
The microarrays were done in duplicate, background was normalized against two empty spots on each array and gene expression was normalized against ribosomal protein S27a (RPS27andand β-actin (ACTB) gene expression.
