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.

gawron_2016      

Jurkat immortalized cell line of human T lymphocyte
References Positional proteomics reveals differences in N-terminal proteoform stability.
Authors Gawron D, Ndah E, Gevaert K, Van Damme P
GEO accession GSE74279
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)
388812515 150420931 545953 29912667 177487406 (45.65%)
Total number of reads (HARR/LTM sample) reads mapped to rRNA (HARR/LTM sample) reads mapped to tRNA (HARR/LTM sample) reads mapped to snRNA/snoRNA (HARR/LTM sample) reads mapped to genomix(% total number of reads)
378053973 143757046 575620 35659711 152894858 (40.44%)
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
FastQC quality control HARR/LTM 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