Whole Transcript Analysis of Mouse Intestine

The microarray was performed as described previously^{23 (link)}. Briefly, One hundred nanogram of RNA was used for Whole Transcript cDNA synthesis (Affymetrix, inc., Santa Clara, USA). Hybridization, washing and scanning of Affymetrix GeneChip Mouse Gene 1.1 ST arrays was carried out according to standard Affymetrix protocols. All arrays of the small intestine were hybridized in one experiment. Arrays were normalized using the Robust Multiarray Average method^{24 (link),25 (link)}. Probe sets were assigned to the unique gene identifiers Entrez IDs. The probes on the Mouse Gene 1.1 ST arrays represent 21,213 Entrez IDs. Array data were analyzed using an in-house, on-line system^{26 (link)}.

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Oost M.J., Ijaz A., van Haarlem D.A., van Summeren K., Velkers F.C., Kraneveld A.D., Venema K., Jansen C.A., Pieters R.H, & ten Klooster J.P. (2022). Chicken-derived RSPO1 and WNT3 contribute to maintaining longevity of chicken intestinal organoid cultures. Scientific Reports, 12, 10563.

Publication 2022

Whole Transcript cDNA synthesis GeneChip Mouse Gene 1.1 ST arrays

Cdna Gene Genechip Hybridization Microarray Mouse Small intestine Synthesis

Corresponding Organization :

Other organizations : Maastricht University, Utrecht University, University of Applied Sciences Utrecht

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Variable analysis

independent variables

RNA amount used for cDNA synthesis (100 nanogram)

dependent variables

Gene expression levels measured using Affymetrix GeneChip Mouse Gene 1.1 ST arrays

control variables

Hybridization, washing and scanning of Affymetrix GeneChip Mouse Gene 1.1 ST arrays were carried out according to standard Affymetrix protocols
All arrays of the small intestine were hybridized in one experiment
Arrays were normalized using the Robust Multiarray Average method

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