annotation file for miRNA
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8.3 years ago
Edalat ▴ 30

Hi I am doing miRNA expression analysis. the experiment was done using human model. I am finding difficulty to do annotation. The chip used is miRNA_4.0.(affymetrix). I extracted the expression dataset. what should be done?

ChIP-Seq • 1.9k views
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Affymetrix annotations for 4.0 array are available on this page (scroll down to additional support).

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I need csv format and the file availabe is this "miRNA 4.0 Annotations, Unsupported, CSV format (25 MB)" what is the meaning of unsupported in the middle?

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My guess .. Affymetrix does not officially support it but it should work i.e. you won't be able to call Affy tech support with questions about that file.

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another question,

it is maybe a ridicules question but Better to ask the way than go astray:

why the number of rows after extracting and annotation in miRNA array expression analysis do not change but in small RNA-seq analysis change?

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I don't know. Is it possible that miRNA array's have unique spots so you get one row per miRNA?

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I don`t know, there is 36249 rows before and after of annotation,In fact, I do not see annotation effect

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excuse me,is it possible in a small RNA-seq experiment ,2 samples need adapter trimming and 2 samples do not need?

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My understanding is small RNAseq experiment should need trimming, unless the other two samples were run for a short number of cycles (or if the adapters have been pre-trimmed).

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