LCL: Cenik 2015 Track Settings

RNA sequencing experiments from human lymphoblastoid cells (Cenik et al. 2015) (All mRNA-seq Reads tracks)

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	GM12878	mRNA-seq coverage of lymphoblastoid cell line: GM12878 (Cenik et al. 2015)	Schema
	GM12891	mRNA-seq coverage of lymphoblastoid cell line: GM12891 (Cenik et al. 2015)	Schema
	GM12892	mRNA-seq coverage of lymphoblastoid cell line: GM12892 (Cenik et al. 2015)	Schema
	GM19238	mRNA-seq coverage of lymphoblastoid cell line: GM19238 (Cenik et al. 2015)	Schema
	GM19239	mRNA-seq coverage of lymphoblastoid cell line: GM19239 (Cenik et al. 2015)	Schema
	GM19240	mRNA-seq coverage of lymphoblastoid cell line: GM19240 (Cenik et al. 2015)	Schema

Description

mRNA-seq unique mappers from lymphoblastoid cell lines .

Methods

Raw sequence data were obtained from NCBI FTP directory (SRP055009). Data from the following samples were processed:

GM12878	mRNA-seq data from (Cenik et al. 2015) 3 replicates
GM12891	mRNA-seq data from (Cenik et al. 2015) 3 replicates
GM12892	mRNA-seq data from (Cenik et al. 2015) 3 replicates
GM19238	mRNA-seq data from (Cenik et al. 2015) 3 replicates
GM19239	mRNA-seq data from (Cenik et al. 2015) 3 replicates
GM19240	mRNA-seq data from (Cenik et al. 2015) 3 replicates

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

C. Cenik, E.S.Cenik,G.W.Byeon, F.Grubert, S.Candille, D.Spacek,B.Alsallakh, H.Tilgner,C.L.Araya, H.Tang, E.Ricci, M.P.Snyder,(2015).Integrative analysis of RNA, translation and protein levels reveals distinct regulatory variation across humans