Research article
Gene expression profiles in testis of pigs with extreme high and low levels of androstenone
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* Corresponding author: Maren Moe maren.moe@umb.no
1 The Norwegian Pig Breeders Association (NORSVIN), Hamar, Norway.
2 Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Ås, Norway.
3 Centre for Integrative Genetics (CIGENE), Norwegian University of Life Sciences, Ås, Norway.
4 Faculty of Agricultural Sciences, University of Aarhus, Tjele, Denmark.
5 MATFORSK, Osloveien 1, Ås, Norway.
BMC Genomics 2007, 8:405 doi:10.1186/1471-2164-8-405
Published: 7 November 2007Additional files
Additional file 1:
Boxplot of the arrays. Boxplots displaying the average log2-ratio distribution of raw background corrected log ratios and printtiploess normalised log ratios for the Duroc (a and c, respectively) and Norwegian Landrace (b and d, respectively) arrays. After within array normalisation, the log ratios were evenly distributed around 0, indicating no need for between array normalisation.
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Additional file 2:
Microarray results analysed using Limma, Duroc. Gene profiling was done using 30 arrays and the cut-off for differentially expressed genes was a p-value of 0.01 after FDR correction. A positive t-statistics indicates up-regulation in animals with high androstenone values and vice versa. M-values are fold changes. The clone names are sequences with a hit to human, mouse or pig genes. Some genes are represented by several different clones on the array and may therefore show up more than once in the table, while some have no hits to the abovementioned species.
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Additional file 3:
Microarray results analysed using Limma, Norwegian Landrace. Gene profiling was done using 30 arrays and the cut-off for differentially expressed genes was a p-value of 0.01 after FDR correction. A positive t-statistics indicates up-regulation in animals with high androstenone values and vice versa. M-values are fold changes. The clone names are sequences with a hit to human, mouse or pig genes. Some genes are represented by several different clones on the array and may therefore show up more than once in the table, while some have no hits to the abovementioned species.
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Additional file 4:
Genes common for Duroc and Norwegian Landrace at p < 0.01. There were 72 genes in common for Duroc and Landrace at significance level p < 0.01.
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Additional file 5:
Microarray results analysed using Fisher's sign test, Duroc. Gene profiling was done using 30 arrays and the cut-off for differentially expressed genes was a FDR of 0.01. A -1 indicates up-regulation, while a 1 indicates down-regulation in boars with high androstenone levels. The clone names are sequences with a hit to human, mouse or pig genes. Some genes are represented by several different clones on the array and may therefore show up more than once in the table, while some have no hits to the abovementioned species.
Format: TXT Size: 18KB Download file
Additional file 6:
Microarray results analysed using Fisher's sign test, Norwegian Landrace. Gene profiling was done using 30 arrays and the cut-off for differentially expressed genes was a FDR of 0.05. A -1 indicates up-regulation, while a 1 indicates down-regulation in boars with high androstenone levels. The clone names are sequences with a hit to human, mouse or pig genes. Some genes are represented by several different clones on the array and may therefore show up more than once in the table, while some have no hits to the abovementioned species.
Format: TXT Size: 14KB Download file
Additional file 7:
Gene ontology (GO) results for the cellular component ontology, Duroc. The genes differentially expressed at p < 0.01 in Duroc were analysed for over-represented GO terms in the cellular component ontology (p < 0.01).
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Additional file 8:
Gene ontology (GO) results for the cellular component ontology, Norwegian Landrace. The genes differentially expressed at p < 0.01 in Duroc were analysed for over-represented GO terms in the cellular component ontology (p < 0.01).
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Additional file 9:
Androstenone values. Animals were paired randomly between the high and low androstenone groups within each breed. The androstenone values (μg/g) in Duroc high (DH), Duroc low (DL), Norwegian Landrace high (NLH) and Norwegian Landrace low (NLL) animals are shown.
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Additional file 10:
Gene transcripts included in the rcPCR analyses.
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Additional file 11:
Real-time PCR primers. Primers designed to test four selected genes using quantitative real-time RT-PCR.
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