Lymphocytes: Reid 2015 Track Settings
 
Simple and inexpensive ribosome profiling analysis of mRNA translation. (Reid et al. 2015)   (All Elongating Ribosomes (Footprints) tracks)

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     lympho directExtract  Ribosome Coverage of ribosomes from Homo sapiens (Reid et al. 2015)   Schema 
     lympho pelleted  Ribosome Coverage of ribosomes from Homo sapiens (Reid et al. 2015)   Schema 

Description

Immortalized human lymphocytes were analyzed by ribosome profiling protocols with or without ribosome purification

Methods

Raw sequence data were obtained from NCBI FTP directory(SRP057384). Data from the following samples were processed:

lympho_directExtract Ribosome coverage data from Homo sapiens(Reid, et al. 2015)
lympho_pelleted Ribosome coverage data from Homo sapiens(Reid, et al. 2015)

Adapter sequence AGATCGGAAGAGCACAC was removed from reads using Cutadapt An alignment to ribosomal RNA was performed using Bowtie, and aligning reads were discarded. An alignment to the hg38 genome assembly was performed using Bowtie, and these tracks contains the uniquely mapping reads.

References

Reid DW, Shenolikar S, Nicchitta CV (2015) Simple and inexpensive ribosome profiling analysis of mRNA translation. . Methods. 2015 Dec;91:69-74. doi: 10.1016/j.ymeth.2015.07.003. Epub 2015 Jul 8. Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't