Using Metagenome Samples for HNSCC analysis
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11 weeks ago
Ozymandeus ▴ 30

So I'm trying to analyze the floor-of-mouth HNSCC(Head and Neck Squamous Cell Carcinoma) and controls. I'm going to be using SRA files. The issue I've encountered is that I could only find 2 controls. The 2 controls were tumor-adjacent normals. For floor-of-mouth, there seems to be a substantial amount of metagenome controls on SRA. For that reason, I was wondering if it would be wise to use these to supplement my current data. My concern is that the metagenome is the collection of many organisms in an environment, which isn't what I'm looking for.

Side Note: If you can find floor-of-mouth control stuff that isn't metagenome, it would be really awesome if you could link it.

SRA DESEQ2 • 213 views

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