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How to find cumulative gene score for gene list?

Hi there,

How to find cumulative gene score for particular gene list, to show the cumulative gene expression(around 100 genes) across multiple samples (using line graph) of RNA seq data.

Thanks

rna-seq rna-seq r sequencing gene
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written by John John

What is a "gene score"? Also, this is a multi-step question. What have you tried? What does your dataset look like right now?

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written by Ram Ram

thanks for the response,

I have RNA seq data set with six columns. I want to show particular list of genes have increased/decreased in every column. How I can I do this?

I don't want to do heat Map for every gene. I want something like cumulative gene expression value/score

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written by John John

six columns

...and what are these 6 columns? We cannot see them from here (?)

Where have you read about this 'cumulative gene expression value/score' - please link us to the literature sources.

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written by Kevin Blighe Kevin Blighe

I'm sorry, I just created the term, because I didn't 't know how to explain it. I don't find any literature for what I want to do.

I have gene expression matrix, with columns= 6 different treatments, rows= genes.

I want to plot 100 gene's expression (y axis) vs 6 treatments (x axis). Is there any way to do this without plotting for each and every gene. My graph should show whether those genes are unregulated/enriched in every treatment.

please help.

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written by John John

Yeah , I liked the box plot. but still I can't really show the differences using Boxplots. Can we calculate expression score for each gene, by comparing the all columns, them sum up? Something like this? I don't know whether I will endup writing new code.

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written by John John

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