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Figure 1 | BMC Bioinformatics

Figure 1

From: In situ analysis of cross-hybridisation on microarrays and the inference of expression correlation

Figure 1

Setup of our study. Illustration of our approach: A) for a given probe set x, assigned to measure the expression of gene X and the transcript of a given gene Y, two variables Q X Y p MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacPC6xNi=xH8viVGI8Gi=hEeeu0xXdbba9frFj0xb9qqpG0dXdb9aspeI8k8fiI+fsY=rqGqVepae9pg0db9vqaiVgFr0xfr=xfr=xc9adbaqaaeGacaGaaiaabeqaaeqabiWaaaGcbaGaemyuae1aa0baaSqaaiabdIfayjabdMfazbqaaiabdchaWbaaaaa@3108@ and ρ XY were calculated. B) Q X Y p MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacPC6xNi=xH8viVGI8Gi=hEeeu0xXdbba9frFj0xb9qqpG0dXdb9aspeI8k8fiI+fsY=rqGqVepae9pg0db9vqaiVgFr0xfr=xfr=xc9adbaqaaeGacaGaaiaabeqaaeqabiWaaaGcbaGaemyuae1aa0baaSqaaiabdIfayjabdMfazbqaaiabdchaWbaaaaa@3108@ is a summary statistic (e. g. p = 75 for the 75% percentile) of the alignment scores of the reporters of X to the transcript of Y. C) ρ XY is the correlation coefficient of the expression signals of genes X and Y. This procedure was repeated for each probe set against every other transcript of the Arabidopsis transcriptome.

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