Raw reads in the FASTQ format were controlled for quality using Trimmomatic (69). Trimmed reads were then aligned to the mouse genome (University of California Santa Cruz Mouse Genome Browser mm9) using TopHat v.2.1.0 (70). Only uniquely mapped reads with a maximum of two mismatches over the whole length of the gene were considered for ensuing analyses. Gene annotations came from Ensembl release 75. Exonic reads were assigned to specific genes from Ensembl release 75 using the htseq-count script from HTSeq-0.6.1 (71).

Note: The content above has been extracted from a research article, so it may not display correctly.



Q&A
Please log in to submit your questions online.
Your question will be posted on the Bio-101 website. We will send your questions to the authors of this protocol and Bio-protocol community members who are experienced with this method. you will be informed using the email address associated with your Bio-protocol account.



We use cookies on this site to enhance your user experience. By using our website, you are agreeing to allow the storage of cookies on your computer.