text: user16055: I am looking to perform expression analysis of miRNAs with normal RNA-seq data lacking small RNA-seq data?
  Which path should I choose for known miRNAs and unknown new miRNAs?
  Data set: rna-seq data that analyzes the expression differences of a plant under stress.
  Objective To assess known and new miRNAs.
  
  user2388: You are going to have to look up the library prep protocol used, and determine if it will capture miRNA.  My guess is, in the course of most RNASeq preps, small products are removed as contamination, so you won't have any real miRNA left behind.
  I believe you need to use a special library prep designed for miRNA to study them.
  
original_text: 16055: <p>I am looking to perform expression analysis of miRNAs with normal RNA-seq data lacking small RNA-seq data?</p>
  <p>Which path should I choose for known miRNAs and unknown new miRNAs?</p>
  <p><strong>Data set:</strong> rna-seq data that analyzes the expression differences of a plant under stress.</p>
  <p><strong>Objective</strong> To assess known and new miRNAs.</p>
   2388: <p>You are going to have to look up the library prep protocol used, and determine if it will capture miRNA.  My guess is, in the course of most RNASeq preps, small products are removed as contamination, so you won't have any real miRNA left behind.</p>
  <p>I believe you need to use a special library prep designed for miRNA to study them.</p>
  