Microarray Gene Expression
MeV or Multiple Experiment Viewer is a Java tool to help you with microarray gene expression data analysis. MeV supports 5 input formats, and provides an intuitive graphical interface for clustering, classification, statistical analysis and theme discovery.
Platforms: Windows
License: Freeware | Size: 64.1 MB | Download (442): MeV 4.6.2 Download |
MeV or Multiple Experiment Viewer is a Java tool to help you with microarray gene expression data analysis. MeV supports 5 input formats, and provides an intuitive graphical interface for clustering, classification, statistical analysis and theme discovery.
Platforms: Mac
License: Freeware | Size: 20.6 MB | Download (493): MeV for Mac OS X 4.6.2 Download |
a simple function that returns a colormap, C, for visualizing gene expression. C is just a N x 3 matrix [R G B] describing the range of color values.example usage: C = exp_colormap('blue-yellow',64); colormap(C);called without any arguments, it returns a [3 x 64] green-red colormap.options for...
Platforms: Matlab
License: Freeware | Size: 10 KB | Download (40): Gene Expression Colormap Download |
EPTable is a simple web-based tool to analyze microarray gene expression profiles with additional gene profiles.
Platforms: Mac, BSD, Linux
License: Freeware | Size: 20.04 KB | Download (44): EPTable Download |
Microarray Gene Expression Database Group and OMG Gene Expression Standard (MAGE)
Platforms: Windows, Mac, Linux
License: Freeware | Size: 761.86 KB | Download (49): mged Download |
The application loads microarray data (gene expression ratios) and determines which genes are up- or downregulated by a user-defined ratio cut-off level.
For each experiment, lists of differentially expressed genes are computed. Every list will be compared to every other list, and the number of...
Platforms: Windows
License: Freeware | Download (436): Venn Mapper Download |
Bio::SAGE::Comparison module compares data from serial analysis of gene expression (SAGE) libraries. SYNOPSIS use Bio::SAGE::Comparison; $sage = Bio::SAGE::Comparison->new(); This module provides several tools for comparing data generated from serial analysis of gene expression (SAGE)...
Platforms: *nix
License: Freeware | Size: 8.19 KB | Download (110): Bio::SAGE::Comparison Download |
Bio::SAGE::DataProcessing module processes raw serial analysis of gene expression (SAGE) data. SYNOPSIS use Bio::SAGE::DataProcessing; $sage = Bio::SAGE::DataProcessing->new(); # open sequence and quality files open( READS, "library.fasta" ); open( QUAL, "library.qual.fasta" ); #...
Platforms: *nix
License: Freeware | Size: 19.46 KB | Download (93): Bio::SAGE::DataProcessing Download |
In one type of gene expression analysis, fluorescently tagged messenger RNA from different cells are hybridized to a microscopic array of thousands of complimentary DNA spots that correspond to different genes. Illuminated spots emit different color light, indicating which genes are expressed...
Platforms: Matlab
License: Freeware | Size: 4.35 MB | Download (46): DNA MicroArray Image Processing Case Study Download |
Maple Tree is a Java based visualization tool used by researchers in the biological sciences to visualize and graphically browse the results of analyses of gene expression data collected from microarray experiments.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 1.17 MB | Download (46): Maple Tree Download |
This application is an interactive simulation of gene expression that allows the user to: Explore a sample gene: Explore the correspondence between DNA, pre-mRNA, mature mRNA, and protein Map the functional elements of a gene. Create mutations in a gene and explore their effects. Design...
Platforms: Mac
License: Shareware | Cost: $0.00 USD | Size: 348.16 KB | Download (46): Gene Explorer Download |
SysGenSIM is a bioinformatics toolbox to create artificial gene expression datasets by simulating Systems Genetics experiments.
Platforms: *nix
License: Freeware | Size: 225.28 KB | Download (49): SysGenSIM Download |
The CMVE toolbox estimates missing values by using correlation structure of the data. The software can be used to impute missing values in any correlated data especally microarray gene expression data. The imputation performance of the software has proven significant affect on gene regulatory...
Platforms: Matlab
License: Freeware | Size: 10 KB | Download (50): Collateral Missing Value Estimation: a new robust missing value estimation algorithm for microarray Download |
Recent studies describe that the level of gene expression between species is positively correlated with the time that has passed since the species split from a common ancestor (Ranz et al., 2006). Moreover, Khaitovich et al. (2004) found a linear relationship between divergence time and...
Platforms: Mac
License: Freeware | Size: 829.44 KB | Download (42): EMOGEE Download |
NetAtlas is a Cytoscape plugin that uses tissue gene expression data to filter cellular signaling network. The plugin identifies of tissue-defined networks, tissue-specific network components, and components with correlated expression across tissues.
Platforms: Mac
License: Freeware | Size: 1003.52 KB | Download (41): NetAtlas Download |
GUI interface to facilitate comparing gene expression levels at different stage
Platforms: Mac
License: Shareware | Cost: $0.00 USD | Size: 9.22 KB | Download (34): Realtime PCR calculator Download |
AlleleID is a comprehensive desktop tool designed to address the challenges of pathogen detection, bacterial identification or taxa/species discrimination using microarrays and TaqMan® and molecular beacon qPCR assays. With ClustalW multiple sequence alignment at its core, AlleleID can design...
Platforms: Mac
License: Demo | Cost: $0.00 USD | Download (124): AlleleID Download |
Main Workbench includes all features from CLC DNA Workbench, CLC RNA Workbench, and CLC Protein Workbench, as well as a range of Gene Expression Analysis.
CLC Main Workbench creates a software environment enabling users to make a large number of advanced protein sequence analyses, combined with...
Platforms: Windows, XP, Windows Vista, XPX64, 7, 7x64
License: Freeware | Download (445): CLC Main Workbench Download |
The Gene Expression Programming Framework in Java.It separates the process of evolution from the process of interpretation of the chromosome, allowing the use of various schemes in the chromosome.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 2.05 MB | Download (48): Amiba Download |
Genevar (GENe Expression VARiation) is a platform of database and web services for the integrative analysis and visulization of SNP-gene assocaitaions in eQTL studies.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 345.41 KB | Download (49): Genevar Download |