Combined RAMPAGE TSS Track Settings
 
Combined RAMPAGE Transcription Start Sites   (All Expression and Regulation tracks)

Maximum display mode:       Reset to defaults

Type of graph:
Track height: pixels (range: 11 to 110)
Data view scaling: Always include zero: 
Vertical viewing range: min:  max:   (range: -100000 to 100000)
Transform function:Transform data points by: 
Windowing function: Smoothing window:  pixels
Negate values:
Draw y indicator lines:at y = 0.0:    at y =
Graph configuration help
Select views (Help):
Peaks ▾       Signals ▾      
 
Peaks Configuration
Show only items with score at or above:   (range: 0 to 1000)
List subtracks: only selected/visible    all  
hide
 RAMPAGE Peaks  TSS Identified by Combined RAMPAGE Results   Schema 
hide
 Configure
 RAMPAGE (Plus)  Combined RAMPAGE Read Density (Plus Strand)   Schema 
hide
 Configure
 RAMPAGE (Minus)  Combined RAMPAGE Read Density (Minus Strand)   Schema 

Description

This track shows the locations of putative Transcription Start Sites (TSS) in the D. pseudoobscura genome based on the analysis of RAMPAGE results from multiple stages of Drosophila embryos.

The datasets were retrieved from the Gene Expression Omnibus database at NCBI under the accession number GSE89300. The results were lifted from the D. pseudoobscura release 2 assembly to the release 3 assembly.

References

Batut PJ, Gingeras TR. Conserved noncoding transcription and core promoter regulatory code in early Drosophila development. Elife. 2017 Dec 20;6.

Batut P, Dobin A, Plessy C, Carninci P, Gingeras TR. High-fidelity promoter profiling reveals widespread alternative promoter usage and transposon-driven developmental gene expression. Genome Res. 2013 Jan;23(1):169-80.