single end miRNA analysis

Hi,

Any one tell why we use only single end fastq files for miRNA analysis not paired end? what is the reason?

gene

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updated 4.0 years ago by Ram

• written 10.5 years ago by anithanagaraj93 •

1 answer

miRNAs are shorter than a typical single-end read, so read #2 would just be wasted bases (it'd completely overlap read #1).

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written 10.5 years ago by Devon Ryan

Thanks Devon... I have one more doubt what is 3p and 5p actually in miRNA result nomenclature?

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updated 6.6 years ago by Ram

• written 10.5 years ago by anithanagaraj93 •

"Question", not "doubt".

Anyway, see the wikipedia article here.

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updated 6.6 years ago by Ram

• written 10.5 years ago by Devon Ryan

Thank Devon for your patience...

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written 10.5 years ago by anithanagaraj93 •

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