How much differential RNA expression is expected between male and female in a random tissue?

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3.1 years ago

nvera ▴ 10

Hello.

I suspect there is something fishy in my data because of the observed differences between two groups are absurdly lower than expected.

To check whether there is something obviously wrong with my data I have followed the same limma procedure but using male and female as groups (instead of responsive and not responsive). I have found that only 10 genes are returned as significantly upregulated in males. Is this quantity normal or does it indicate some obvious problem with the data and/or sample size?

Thanks.

DE RNA limma • 1.2k views

ADD COMMENT • link updated 3.1 years ago by Ankit ▴ 500 • written 3.1 years ago by nvera ▴ 10

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What is the origin of tissue?

Did you check variability within replicates of male or female tissue?

ADD REPLY • link 3.1 years ago by Ankit ▴ 500

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The data comes from pre-treatment melanoma tumour samples from diverse anatomical locations.

ADD REPLY • link 3.1 years ago by nvera ▴ 10

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Number of Significantly deregulated genes might have decreased due to variability between replicates. Can you show counts of five most expressed genes (let's say in replicate 1) and any five housekeeping genes?

ADD REPLY • link 3.1 years ago by Ankit ▴ 500

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