Summary

A web-based software for manipulating Listeria "omics" data.

File:OverviewBacnet.png

Tools available in BACNET platform

Summary

The Listeriomics website is a web-based software design to manage genomic, transcriptomic and proteomic data for 'Listeria' species. It integrates different type of tools for “omics” data analyses:

1. A highly interactive genome viewer for display of gene expression arrays, tiling arrays, and RNA-Seq datasets along with proteomics and genomics datasets.
2. Expression and protein atlas, which are tools to connect every genomic feature (genes, smallRNAs, antisenseRNAs) or proteins to the most relevant “omics” data.
3. A tool to explore gene conservation throughout Listeria strains.
4. A co-expression network tool to discover new potential regulation.

Tutorials

First hand on Listeriomics

Here we show the general organization of the website

Genomic tools	How-to scroll all the genomes.
Gene tools	How-to access a specific gene and get information about its annotation, its conservation, its transcription or translation.
Small RNA tools	Create a desktop version of BACNET
First step in the web version	Deploy a BACNET website

Main class of BACNET	We explain the class architecture, focusing on the main class used
How-to - Genomics	Tutorials for different tools related to genomics
How-to - Transcriptomics	Tutorials for different tools related to transcriptomics (Arrays and RNASeq)
How-to	Every tutorial available

Database

The Listeriomics database includes all complete genomes, transcriptomes and proteomes published on 'Listeria' species to date. It allows biologists to analyse dynamically all these datasets in a user-friendly format, and can be used by bio-informaticians as a central database for systems biology analysis.

List of data available:

• 50 Listeria complete genomes
• 492 transcriptome datasets
• 74 proteome datasets

Screenshots

• MultiOmicsViewBacnet.png

  Multi omics view: Tiling array, Proteomics, TSS data, RNAseq, Genome annotation. Desktop version

• SingleSourcingBacnet.png

  Single sourcing allows to develop with same Java code a desktop and a web application

• SplashScreen.png

  Splash screen of BACNET platform

• ListeriomicsWebsite.png

  View of the Listeriomics website developed thanks to BACNET platform

• Environmentbacnet.png

  View of Eclipse environment in which BACNET is developed

• HeatMapBacnet.png

  HeatMap view (desktop version)

• VennDiagramBacnet.png

  Venn Diagram view (desktop version)

• SmallRnaBacnet.png

  Small RNA tool (desktop version)

• ExpressionAtlasWebBacnet.png

  Expression Atlas tool (web version)