Tripal 7.x-3.6 – Construction of online Genetic and Genomic databases

Tripal 7.x-3.6

:: DESCRIPTION

Tripal is a collection of open-source freely available Drupal modules and is a member of the GMOD family of tools. Tripal serves as a web interface for the GMOD Chado database and is designed to allow anyone with genomic data to quickly create an online genomic database using community supported tools.

::DEVELOPER

Tripal team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux
Apache
PHP
phpPgAdmin
MySQL or PostgreSQL
Chado

:: DOWNLOAD

Tripal

:: MORE INFORMATION

Citation

Tripal v1.1: a standards-based toolkit for construction of online genetic and genomic databases.
Sanderson LA, Ficklin SP, Cheng CH, Jung S, Feltus FA, Bett KE, Main D.
Database (Oxford). 2013 Oct 25;2013:bat075. doi: 10.1093/database/bat075.

GenExp /DASgenexp – Web-based Visualization tool that interactively Explore Genomic Database

GenExp /DASgenexp

:: DESCRIPTION

GenExp is a web based and fully interactive visual DAS client. GenExp is a genome oriented DAS client capable of creating informative representations of genomic data zooming out from base level to complete chromosomes. It proposes a novel approach to genomic data rendering and uses the latest HTML5 web technologies to create the data representation inside the client browser.

DASGenExp is a web-based visualization tool that interactively explore distributed DAS data bases.

::DEVELOPER

the Algorithmics and Genetics Group

:: SCREENSHOTS

:: REQUIREMENTS

Firefox

:: DOWNLOAD

:: MORE INFORMATION

Citation

GenExp: an interactive web-based genomic DAS client with client-side data rendering.
Gel Moreno B, Messeguer Peypoch X.
PLoS One. 2011;6(7):e21270. Epub 2011 Jul 5.

RRE 20040401 – Retrieval of Non-coding Regulative Elements from Annotated Genomic databases

RRE 20040401

:: DESCRIPTION

RRE (Retrieval of non-coding Regulative Elements) is a tool to extract non-coding regions associated to annotated genes.

RRE Online Version

::DEVELOPER

the Bioinformatics and Genomics Unit at Dept. of Clinical and Biological Sciencesat Torino University.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows
Java

:: DOWNLOAD

RRE

:: MORE INFORMATION

Citation:

Bioinformatics. 2004 Nov 1;20(16):2848-50. Epub 2004 Apr 29.
RRE: a tool for the extraction of non-coding regions surrounding annotated genes from genomic datasets.
Lazzarato F, Franceschinis G, Botta M, Cordero F, Calogero RA.