Schema for Combined modENCODE RNA-Seq (Development) (R5) - Combined modENCODE RNA-Seq for Multiple Developmental Stages (R5)
  Database: dm6    Primary Table: modENCODE_rnaseq_Combined_plus    Row Count: 1   Data last updated: 2022-10-21
fieldexampleSQL type info
fileName /gbdb/dm6/bbi/modENCODE_RNA...varchar(255) values

This table points to a file in BigWig format.

Sample Rows
 
fileName
/gbdb/dm6/bbi/modENCODE_RNAseq/modENCODE_rnaseq_Combined_plus.bw

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

Combined modENCODE RNA-Seq (Development) (R5) (modENCODE_rnaseq_Combined) Track Description
 

Description

This track shows the cumulative strand-specific RNA-Seq coverage for different developmental stages of D. melanogaster. The RNA-Seq coverage datasets were obtained from the ENCODE data portal at UCSC on July 2016. The alignment results for each sample were lifted from the release 5 assembly to the release 6 assembly using CrossMap.

Credits

Brown JB, et al. Diversity and dynamics of the Drosophila transcriptome. Nature. 2014 Aug 28;512(7515):393-9.

Zhao H, Sun Z, Wang J, Huang H, Kocher JP, Wang L. CrossMap: a versatile tool for coordinate conversion between genome assemblies. Bioinformatics. 2014 Apr 1;30(7):1006-7.