GSM3724179: AGO2 IP FMR1 ko mouse; Mus musculus; OTHER
Ago2 was immunoprecipitated using anti-AGO2 antibody EAG009 (eClipse BioInnovations).  Samples from each sample was normalized to input samples. Sequencing adapters were trimmed from the 3' end of each read using Cutadapt (version 1.15).  Reads were then mapped to a database of mouse repeats using STAR (version 2.6.0c).  Reads that mapped to the repeats were removed. The remaining reads were mapped to the mouse genome (mm10) using STAR (version 2.6.0c).  PCR duplication removal was performed using UMI tools (version 5.2). CLIPper (version 1.4) was then used to identify clusters within the IP samples, and read density within clusters was compared against the size matched input sample using a custom perl script to identify peaks enriched in the CLIP sample versus the input sample.
GEO
GSM3724179