miRNA-seq of Colon cancer patient: Tumor: Sample ccaab7e8-e841-4397-80aa-370b58_D7_1
Indexed small RNA sequencing libraries were prepared from the RNA samples using the TruSeq Small Total RNA Sample Prep Kit and bar-coded with individual tags. Library preparation was performed similarly to the WXS sequencing. Quality control was performed at every step, and the libraries were quantified using the Agilent 2100 Bioanalyzer. Indexed libraries were prepared as equimolar pools and loaded on the NextSeq500 (1x75 single read) run to generate at least 5,000,000 single reads per sample library. The raw Illumina sequence data were demultiplexed and converted to fastq files. The adapters were trimmed using Cutadpt (version 1.13) with a maximum allowed error rate of 0.1. Trimmed reads shorter than 17 or longer than 26 nucleotides in length were excluded. Reads were then mapped to the human genome hg19 using Bowtie (version 1.1.1). The resulting bam was uploaded to short read archive.
NCI-phs000892
228_SR
alignment_software
bowtie version 2.2.2