PRIDESpotMapper – Complement to PRIDEConverter for Gel-based Experiments

PRIDESpotMapper

:: DESCRIPTION

PRIDESpotMapper is a novel Java-based application that modifies any any PRIDE XML file generated using the PRIDEConverter dividing the identified proteins according to the source identification file for each gel spots.

::DEVELOPER

CNB Proteomics Facility

:: SCREENSHOTS

PRIDESpotMapper

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • Java
  • PRIDEConverter

:: DOWNLOAD

 PRIDESpotMapper

:: MORE INFORMATION

Citation:

BMC Res Notes. 2011 Mar 28;4:86. doi: 10.1186/1756-0500-4-86.
A DIGE study on the effects of salbutamol on the rat muscle proteome – an exemplar of best practice for data sharing in proteomics.
Kenyani J1, Medina-Aunon JA, Martinez-Bartolomé S, Albar JP, Wastling JM, Jones AR.

RHScorer 2.1 – Score Gels

RHScorer 2.1

:: DESCRIPTION

RHScorer is used to score gels. The software consists of client applet and a server.The server is used to maintain the Gel Images and scores. The applet is used to score the gels.

::DEVELOPER

Coordinated Laboratory for Computational Genomics (CLCG)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Java

:: DOWNLOAD

 RHScorer

:: MORE INFORMATION

MELANIE VIEWER 7.0.7 – Visualize Gels and Related Data obtained from Melanie

MELANIE VIEWER 7.0.7

:: DESCRIPTION

Melanie Viewer is made available free of charge to help researchers visualize gels and related data obtained through the use of the full version of Melanie by colleagues. It can also be used to view annotated gels from databases such as SWISS-2DPAGE, or any other image files with an appropriate format (.tif, .gel, …).

::DEVELOPER

The Proteome Informatics group

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

MELANIE VIEWER

:: MORE INFORMATION

GelScape 20030728 – Web-based Gel Viewing and Annotation System

GelScape 20030728

:: DESCRIPTION

GelScape offers a freely available, platform-independent approach to analyzing standard 1D and 2D protein gels.  GelScape uses advanced concepts in “network computing” enabling one to upload, download, save, print, view, annotate, edit, label, compare and spot mark just about any gel image.  GelScape also allows one to calculate spot intensity, prepare HTML image maps and archive annotated gels to a public database (GelBank) – all using an easy-to-use, intuitive browser interface.

::DEVELOPER

Wishart Pharmaceutical Research Group

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 GelScape

:: MORE INFORMATION

Citation

Young N, Chang Z, Wishart DS.
GelScape: a web-based server for interactively annotating, manipulating, comparing and archiving 1D and 2D gel images.
Bioinformatics. 2004 Apr 12;20(6):976-8.

Wildfire/GEL 2.0 – Build Workflows

Wildfire/GEL 2.0

:: DESCRIPTION

Wildfire is a graphical tool for building workflows. It comes preconfigured to use EMBOSS programs as components for Bioinformatics workflows, and is extensible to support other components.

GEL (Grid Execution Language) is a general-purpose parallel scripting language for describing workflows. It features explicit parallel constructs which allow for efficient parallel execution on clusters, Grids and SMP machines. There is GEL support for Condor Grids, and SGE, PBS and LSF-based clusters.

Wildfire/GEL provides an integrated solution for building and executing workflows. Wildfire runs as an application on desktop and laptop platforms, and the GEL workflows can either run on the same machine or remotely on the Grid or on a cluster

::DEVELOPER

Bioinformatics Institute of Singapore.

:: SCREENSHOTS

 

:: REQUIREMENTS

  • Windows / Linux
  • Java

:: DOWNLOAD

 Wildfire/GEL

:: MORE INFORMATION

Citation:

Francis Tang , Ching Lian Chua , Liang-Yoong Ho , Yun Ping Lim , Praveen Issac and Arun Krishnan
Wildfire: distributed, Grid-enabled workflow construction and execution,
BMC Bioinformatics 2005, 6:69.

Chua Ching Lian , Francis Tang , Praveen Issac , Arun Krishnan
GEL: Grid Execution Language,
J. Parallel and Distributed Computing 2005, 65(7):857-869.

Gel Analyzer 2010a – 1D Gel Electrophoresis Image Analysis

Gel Analyzer 2010a

:: DESCRIPTION

GelAnalyzer is a free 1D gel electrophoresis image analysis software .The process of gel image analysis is straightforward and covers all the main aspects of evaluation from automatic lane detection to precise molecular weight calculations. Many tools help you to improve the accuracy of gel evaluation, such as background subtraction methods and Rf calibration. These features make GelAnalyzer a real solution to gel image analysis in cost sensitive enviroments. With GelAnalyzer you don’t need expensive gel documentation system for simple image evaluation. You may obtain the gel image with a common digital camera, or even with your cell phone, and use GelAnalyzer to get the results in just a few seconds.

::DEVELOPER

lazarsoftware.com

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Mac OsX / Windows
  • Java

:: DOWNLOAD

Gel Analyzer

:: MORE INFORMATION

By downloading, copying or installing any version of GelAnalyzer you accept to be bound by the End User Licence Agreement.

CP ATLAS 2.0 – Thin Layer and Gel Analysis Software

CP ATLAS 2.0

:: DESCRIPTION

CP ATLAS is a software to analyze TLC and gel images. With CP ATLAS you don’t need a professional densitometer for simple quantitative analysis. You can use a simple digital camera, office scanner or mobile phone to get a picture. With CP ATLAS the analysis takes only a few seconds, and you can copy the results to your spreadsheet software for further usage.

::DEVELOPER

lazarsoftware.com

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Mac OsX / Windows
  • Java

:: DOWNLOAD

CP ATLAS

:: MORE INFORMATION

Melanie 7.0 – 2D Gel Analysis Platform

Melanie 7.0

:: DESCRIPTION

Melanie provides powerful and innovative solutions to shorten the path from data acquisition to protein information, both for conventional 2-DE and DIGE gels. The superior spot detection and matching algorithms facilitate the extraction of statistically valid differences between groups of 2-D gels, while requiring minimal user intervention and therefore speeding up analysis time.

::DEVELOPER

Geneva Bioinformatics (GeneBio) SA

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

Melanie

:: MORE INFORMATION