modENCODE TopHat Junctions Track Settings
 
D. takahashii TopHat Splice Junctions from modENCODE RNA-Seq   (All RNA Seq Tracks)

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Show only items with score at or above:   (range: 0 to 1000)

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Description

This track was created by mapping D. takahashii RNA-Seq reads (generated by the modENCODE project) against the D. takahashii DtakGB2 assembly using Bowtie2 and TopHat. The RNA-Seq data were obtained from the NCBI Sequence Read Archive under the BioProject accession number PRJNA63469.

The TopHat junction predictions from the different libraries are filtered and merged together into a single set of predictions. The predictions are color-coded based on the number of reads supporting the junction:

ColorNumber of reads
> 1000
500-999
100-499
50-99
10-49
< 10

References

Chen ZX et al. Comparative validation of the D. melanogaster modENCODE transcriptome annotation. Genome Res. 2014 Jul;24(7):1209-23.

Trapnell C, Pachter L, Salzberg SL. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics. 2009 May 1;25(9):1105-11.