Validation tools in bioinformatics
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17 months ago
tonmoya.22 • 0

I would like to have a list of validation tools used in bioinformatics. Such as tools used for validation of differential gene expression etc.

rna-seq gene sequence sequencing RNA-Seq • 439 views
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If, by validation, you mean characterizing your differentially expressed genes, you can use GSEA, gene ontology term enrichment, pathway analysis, etc.

If I am validating my differential gene expression data for tumor versus normal, I might use one of those tools to see if the expected cancer pathways are represented among my differentially expressed genes.

If I'm analyzing a high-throughput genome-wide loss-of-function genetic screen, I might use one of those tools to validate whether known essential genes are represented among my hits.

It's basically using known annotated gene sets / pathways to serve as a positive control for analyzing your experiments.

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17 months ago
GenoMax 99k

"validation of differential expression"?

One would generally have to do that by doing additional experiments (e.g. qPCR etc). It would be out of the bioinformatics realm at that point.

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17 months ago

I think the most common ways of doing "bioinformatic validations" is the analyse another similar dataset and see if you find the same.

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