sORFs.org: repository of small ORFs identified by ribosome profiling

sORFs.org datasets. This section provides detailed information about the datasets used. For more information about the dataset processing please consult the INFO page. navigate through the datasets on the left to acquire more information about the corresponding dataset.

grow_2015      

HEK293T Human embryonic kidney cells 293 which stably express the SV40 large T antigen, specific cell line originally derived from human embryonic kidney cells grown in tissue culture
References mRNA destabilization is the dominant effect of mammalian microRNAs by the time substantial repression ensues.
Authors Eichhorn SW, Guo H, McGeary SE, Rodriguez-Mias RA, Shin C, Baek D, Hsu S, Ghoshal K, Villén J, Bartel DP
GEO accession GSE63591
treatment type pre-lysis cycloheximide treatment nuclease used: RNase I
total number of reads (CHX/EM sample) reads mapped to rRNA (CHX/EM sample) reads mapped to tRNA (CHX/EM sample) reads mapped to snRNA/snoRNA (CHX/EM sample) reads mapped to genomix(% total number of reads)
38774789 2826059 42800 166156 28567798 (73.68%)
FastQC quality control CHX/EM data (no rRNA/tRNA/snRNA/snoRNA) FastQC provides quality control checks on raw sequence data coming from high throughput sequencing pipelines. FastQC provides a modular set of analyses which can be used to give a quick impression on the quality and potential problems of the data. Prior to the FastQC analysis, rRNA, tRNA, snRNA & snoRNA were removed from the data.

source: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
FastQC quality control CHX/EM