Combined modENCODE RNA-Seq (Cell Lines) Track Settings

Combined modENCODE RNA-Seq for Multiple Cell Lines (All Updated Transcriptome Tracks)

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Description

This track shows the cumulative strand-specific RNA-Seq coverage for different D. melanogaster cell lines. The RNA-Seq read coverage for each sample was normalized by a wigsum of 100,000,000 (1 million 100bp reads) using the bam2wig.py program in RSeQC, and then combined into a single track.

The RNA-Seq reads were obtained from the ENCODE data portal at UCSC on August 2019, and then mapped against the D. melanogaster dm6 genome assembly using HISAT2.

References

Cherbas L, et al. The transcriptional diversity of 25 Drosophila cell lines.. Genome Res. 2011 Feb;21(2):301-14.

Kim D, Langmead B, Salzberg SL. HISAT: a fast spliced aligner with low memory requirements. Nat Methods. 2015 Apr;12(4):357-60.

Wang L, Wang S, Li W. RSeQC: quality control of RNA-seq experiments. Bioinformatics. 2012 Aug 15;28(16):2184-5.