U20S :Guo 2014 Track Settings

Expanded identification and characterization of mammalian circular RNAs. (Guo et al. 2014) (All mRNA-seq Reads tracks)

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	miR 155 transfected poly A selected RNA seq	mRNA Coverage of ribosomes from Homo sapiens (Guo et al. 2014)	Schema
	miR 155 transfected tRNA rRNA depeleted RNA seq	mRNA Coverage of ribosomes from Homo sapiens (Guo et al. 2014)	Schema
	miR transfected poly A selected RNA seq	mRNA Coverage of ribosomes from Homo sapiens (Guo et al. 2014)	Schema
	miR transfected tRNA rRNA depeleted RNA seq	mRNA Coverage of ribosomes from Homo sapiens (Guo et al. 2014)	Schema
	mock transfected poly A selected RNA seq	mRNA Coverage of ribosomes from Homo sapiens (Guo et al. 2014)	Schema
	mock transfected tRNA rRNA depeleted RNA seq	mRNA Coverage of ribosomes from Homo sapiens (Guo et al. 2014)	Schema

Description

Taken from GEO Datasets page (GSE51584) : Most circRNAs are expressed in only a few cell types and at low abundance, but they are no more cell-type specific than are mRNAs with similar overall expression levels. Although most circRNAs overlap protein-coding sequences, ribosome profiling provides no evidence for their translation.

Methods

Raw sequence data were obtained from NCBI FTP directory(SRP031849). Data from the following samples were processed:

miR_155_transfected_tRNA_rRNA_depeleted_RNA_seq	mRNA-seq unique mappers from Homo sapiens(Guo, et al. 2014)
mock_transfected_tRNA_rRNA_depeleted_RNA_seq	mRNA-seq unique mappers from Homo sapiens(Guo, et al. 2014)
miR_transfected_tRNA_rRNA_depeleted_RNA_seq	mRNA-seq unique mappers from Homo sapiens(Guo, et al. 2014)
mock_transfected_poly_A_selected_RNA_seq	mRNA-seq unique mappers from Homo sapiens(Guo, et al. 2014)
miR_155_transfected_poly_A_selected_RNA_seq	mRNA-seq unique mappers from Homo sapiens(Guo, et al. 2014)
miR_transfected_poly_A_selected_RNA_seq	mRNA-seq unique mappers from Homo sapiens(Guo, et al. 2014)

Adapter sequence TCGTATGCCGTCTTCTG 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

Guo JU, Agarwal V, Guo H, Bartel DP (2014) Expanded identification and characterization of mammalian circular RNAs. . Genome Biol. 2014 Jul 29;15(7):409. doi: 10.1186/s13059-014-0409-z. Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.