backSplicedJunctions: backSplicedJunctions

In Aufiero/circRNAprofiler: circRNAprofiler: An R-Based Computational Framework for the Downstream Analysis of Circular RNAs

backSplicedJunctions

Description

A data frame containing genomic coordinates (genome assembly hg19) of circRNAs detected by three detection tools (CircMarker(cm), MapSplice2 (m) and NCLscan (n)) in the human left ventricle tissues of 3 controls, 3 patients with dilated cardiomyopathies (DCM) and 3 patients with hypertrophic cardiomyopathies (HCM). This data frame was generated with getBackSplicedJunctions.

Usage

data(backSplicedJunctions)

Format

A data frame with 63521 rows and 16 columns

id

Unique identifier

gene

is the gene name whose exon coordinates overlap that of the given back-spliced junctions

strand

is the strand where the gene is transcribed

chrom

the chromosome from which the circRNA is derived

startUpBSE

is the 5' coordinate of the upstream back-spliced exon in the transcript. This corresponds to the back-spliced junction / acceptor site

endDownBSE

is the 3' coordinate of the downstream back-spliced exon in the transcript. This corresponds to the back-spliced junction / donor site

tool

are the tools that identified the back-spliced junctions

C1

Number of occurences of each circRNA in control 1

C2

Number of occurences of each circRNA in control 2

C3

Number of occurences of each circRNA in control 3

D1

Number of occurences of each circRNA in DCM 1

D2

Number of occurences of each circRNA in DCM 2

D3

Number of occurences of each circRNA in DCM 3

H1

Number of occurences of each circRNA in HCM 1

H2

Number of occurences of each circRNA in HCM 2

H3

Number of occurences of each circRNA in HCM 3

Examples

data(backSplicedJunctions)

Aufiero/circRNAprofiler documentation built on Nov. 3, 2024, 10:12 a.m.