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Improved transcription and translation with L-leucine stimulation of mTORC1 in Roberts syndrome. (Xu et al. 2016)   (All mRNA-seq Reads tracks)

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     10 mut l leucine total RNA  mRNA Coverage of ribosomes from Homo sapiens (Xu et al. 2016)   Schema 
     11 mut d leucine total RNA  mRNA Coverage of ribosomes from Homo sapiens (Xu et al. 2016)   Schema 
     12 mut l leucine total RNA  mRNA Coverage of ribosomes from Homo sapiens (Xu et al. 2016)   Schema 
     corr d leucine total RNA  mRNA Coverage of ribosomes from Homo sapiens (Xu et al. 2016)   Schema 
     corr l leucine total RNA  mRNA Coverage of ribosomes from Homo sapiens (Xu et al. 2016)   Schema 
     mut d leucine total RNA  mRNA Coverage of ribosomes from Homo sapiens (Xu et al. 2016)   Schema 
     wt d leucine total RNA  mRNA Coverage of ribosomes from Homo sapiens (Xu et al. 2016)   Schema 
     wt l leucine total RNA  mRNA Coverage of ribosomes from Homo sapiens (Xu et al. 2016)   Schema 
    

Description

42 samples of human fibroblast cell lines with various genotypes (wt, corrected, and esco2 mutants) are treated with l-leucine or d-leucine (control) for 3 or 24 hours. Biological replicates are present.

Methods

Raw sequence data were obtained from NCBI FTP directory(SRP052229). Data from the following samples were processed:

wt_l_leucine_total_RNA mRNA-seq unique mappers from Homo sapiens(Xu, et al. 2016)
11_mut_d_leucine_total_RNA mRNA-seq unique mappers from Homo sapiens(Xu, et al. 2016)
corr_l_leucine_total_RNA mRNA-seq unique mappers from Homo sapiens(Xu, et al. 2016)
wt_d_leucine_total_RNA mRNA-seq unique mappers from Homo sapiens(Xu, et al. 2016)
12_mut_l_leucine_total_RNA mRNA-seq unique mappers from Homo sapiens(Xu, et al. 2016)
mut_d_leucine_total_RNA mRNA-seq unique mappers from Homo sapiens(Xu, et al. 2016)
10_mut_l_leucine_total_RNA mRNA-seq unique mappers from Homo sapiens(Xu, et al. 2016)
corr_d_leucine_total_RNA mRNA-seq unique mappers from Homo sapiens(Xu, et al. 2016)

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 reads below 25nt were discarded. These tracks contains the uniquely mapping reads.

References

Xu B, Gogol M, Gaudenz K, Gerton JL (2016) Improved transcription and translation with L-leucine stimulation of mTORC1 in Roberts syndrome. . BMC Genomics. 2016 Jan 5;17:25. doi: 10.1186/s12864-015-2354-y. Research Support, Non-U.S. Gov't