plotGenomic

Created: 2013-10-07 15:02:26

This workflow returns a graphical representation of selected Nencki Genomics Database (www.nencki-genomics.org) content in the ± 10 kb flank of the transcription start site of a chosen gene.

More precisely, it returns instances of selected area types, and instances of selected motif types that intersect any of the returned area instances. The results are returned as three files: a pdf file with the plot, and two tab-separated files with the details of areas and motifs shown in the plot.

Publication doi: 10.1093/database/bat069

Information Preview

Information Run

Run this Workflow in the Taverna Workbench...

Option 1:

Copy and paste this link into File > 'Open workflow location...'
http://www.myexperiment.org/workflows/3850/download?version=1
[ More InfoExpand ]


Information Workflow Components

Information Authors (1)
Information Titles (1)
Information Descriptions (1)
Information Dependencies (0)
Inputs (9)
Processors (7)
Beanshells (0)
Outputs (2)
Datalinks (17)
Coordinations (0)

Information Workflow Type

Taverna 2

Information Uploader

Information License

All versions of this Workflow are licensed under:

Information Version 1 (of 1)

Information Credits (1)

(People/Groups)

Information Attributions (0)

(Workflows/Files)

None

Information Tags (11)

Log in to add Tags

Information Shared with Groups (0)

None

Information Featured In Packs (0)

None

Log in to add to one of your Packs

Information Attributed By (0)

(Workflows/Files)

None

Information Favourited By (0)

No one

Information Statistics

 

Citations (1)

1. Izabella Krystkowiak; Jakub Lenart; Konrad Debski; Piotr Kuterba; Michal Petas; Bozena Kaminska; Michal Dabrowski, Nencki Genomics Database--Ensembl funcgen enhanced with intersections, user data and genome-wide TFBS motifs, Database 2013; doi: 10.1093/database/bat069, 02 October 2013, http://database.oxfordjournals.org/cgi/content/full/bat069? ijkey=ml5GxAmJmA0S7wS&keytype=ref


Version History

In chronological order:



Reviews Reviews (0)

No reviews yet

Be the first to review!



Comments Comments (0)

No comments yet

Log in to make a comment




Workflow Other workflows that use similar services (1)

Uploader

Workflow showDatasetsGenomic (1)

Thumb
Shows all the datasets available in the Nencki Genomics Database (www.nencki-genomics.org). Click 'Use examples' to see all the datasets, separated into datasets of TFBS motifs, and all the remaining datasets (areas), the latter including data from Ensembl funcgen and (thus) Encode. Publication doi: 10.1093/database/bat069

Created: 2013-10-07

Credits: User mdabr