Software: Gene

 
SpliceGrapher 0.0.5Mark F. Rogers

It enhances gene models using evidence from next-generation sequencing and EST alignments.

FEATURES:

· splice graph prediction
· splice junction prediction using support-vector machines
· splice graph visualization

SpliceGrapher 0.0.5 by Mark F. Rogers
Platform: WindowsGraphic Apps- CAD
License: FreewareSize: 645.0 KBReleased: 26 May, 2012
Download: http://sourceforge.net/projects/splicegrapher/files/SpliceGrapher-0.0.5.tgz/download?_test=goal
MeV for Mac OS X 4.6.2 r 2536MeV

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.

Platform: WindowsGraphic Apps- CAD
License: FreewareSize: 20.6 MBReleased: 27 April, 2012
Download: http://sourceforge.net/projects/mev-tm4/files/mev-tm4/MeV%204.6.2/MeV_4_6_2_r2536_mac.tbz/download
MeV 4.6.2 r 2536MeV

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.

Platform: WindowsGraphic Apps- CAD
License: FreewareSize: 64.1 MBReleased: 05 March, 2012
Download: http://sourceforge.net/projects/mev-tm4/files/mev-tm4/MeV%204.6.2/MeV_4_6_2_r2536_win.zip/download
Asus Rampage III Gene Audio Driver 6.0.1.8400asus.com

Download the latest version update for Asus Rampage III Gene Audio Driver.

Platform: WindowsSystem Utilities- Other
License: FreewareSize: 73.0 MBReleased: 27 June, 2012
Download: http://dlsvr04.asus.com/pub/ASUS/misc/audio/VIA_Audio_V6018400_XpVistaWin7.zip
Gene Designer 2.0DNA2.0

Gene Designer encompasses a complete and visually rich set of tools to bring your creative ideas to completion.

Capture you entire gene design process in one efficient application, using a range of design tools purposely built for the task:

- Intelligent, fast, and easy-to-use algorithms for in silico cloning, codon optimization, ...

Platform: WindowsHome & Hobby- Personal Interest
License: FreewareSize: 4.4 MBReleased: 13 April, 2012
Download: https://www.dna20.com/genedesigner2/
REST 2008 2.0gene quantification

REST 2008 is a standalone software package for analyzing gene expression using real-time amplification data. The software addresses issues surrounding the measurement of uncertainty in expression ratios by introducing randomization and bootstrapping techniques. New confidence intervals for expression levels also allow measurement of not only the statistical ...

Platform: WindowsHome & Hobby- Personal Interest
License: FreewareSize: 70.5 MBReleased: 08 February, 2012
Download: http://www.gene-quantification.de/rest-2008.html
REST 2009 2.0Corbett Life Science, a QIAGEN Company.

Pfaffl (Technical University Munich) and QIAGEN, for analysis of gene expression data from quantitative real-time PCR experiments.
For gene expression analysis using real-time PCR data from the Rotor-Gene Q and other cyclers

Platform: WindowsHome & Hobby- Genealogy
License: FreewareSize: 0Released: 19 March, 2012
Download: http://www.gene-quantification.de/rest-2009.html
Gene Machine: The Lac Operon 1.03phet.colorado.edu

Gene Machine: The Lac Operon create gene networks. Build a gene network! The lac operon is a set of genes which are responsible for the metabolism of lactose in some bacterial cells. Explore the effects of mutations within the lac operon by adding or removing genes from the DNA.Sample Learning Goals
1. Predict the effects on lactose metabolism ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 1.1 MBReleased: 28 January, 2013
Download: http://phet.colorado.edu
GNLab (Gene Network virtual Laboratory) 1.0www.it.usyd.edu.au

Computational Pipeline for Large-Scale Gene Network Analysis. GNLab (Gene Network virtual Laboratory) is a novel bioinformatics tool for the large-scale analysis of gene regulatory networks (GRNs). This C++ command-line tool supports the analysis of both the static structure and dynamic behaviour of a GRN. GNLab is developed to support the design and ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 673.2 KBReleased: 08 March, 2013
Download: http://sydney.edu.au/engineering/it/
Information Systems - Computer Science - Information Technology - Information Technologies
Gene Explorer 1.3intro.bio.umb.edu

Simulate gene expression fast and easy. Gene Explorer is an interactive simulation of gene expression that allows the user to:
1. Explore a sample gene:
* Explore the correspondence between DNA, pre-mRNA, mature mRNA, and protein
* Map the functional elements of a gene.
2. Create mutations in a gene and explore their effects.

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 70.8 KBReleased: 31 March, 2013
Download: http://intro.bio.umb.edu
PaGE (Patterns from Gene Expression) 5.0.1www.cbil.upenn.edu

PaGE (Patterns from Gene Expression) is free downloadable program for microarray analisys. PaGE can be used to produce sets of differentially expressed genes with confidence measures attached. These lists are generated the False Discovery Rate method of controlling the false positives.But PaGE is more than a differential expression analysis tool. PaGE ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 3.5 MBReleased: 12 April, 2013
Download: http://www.cbil.upenn.edu
Gene Visualizer 1.0www.sciencebitches.net

Gene Visualizer is a software for visually exploring genes. Gene Visualizer display an organisms genes visually. The software takes two sets of genes as input. One is a list of an organisms predicted genes, and the other is a list of an organisms known genes. It can be useful to compare how the two lists of genes match up, which is where Gene Visualizer ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 7.8 KBReleased: 25 December, 2012
Download: http://www.sciencebitches.net
LeMoNe 2.5.1bioinformatics.psb.ugent.be

Gene expression data analysis made easy. LeMoNe is for Learning Module Networks from gene expression data.
The purpose of the LeMoNe program package is to create a module network from expression data. The end result is a set of gene clusters (co-expressed genes), and their associated regulators.Please Note: this software is free for academic use ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 21.9 MBReleased: 28 January, 2013
Download: http://bioinformatics.psb.ugent.be
Bioinformatics - Evolutionary - Genomics - Research
Free Deep Space 9 Screensaver 3.0Your Own Screensaver

Free Deep Space 9 Screensaver Conceived in 1991, shortly before Gene Roddenberry?s death, DS9 centers on the formerly Cardassian space station, Terok Nor. After the Bajorans liberated themselves from the long and brutal Cardassian Occupation, the United Federation of Planets is invited by the Bajoran Provisional Government to take joint control of ...

Free Deep Space 9 Screensaver 3.0 by Your Own Screensaver
Platform: WindowsDesktop- Screen Savers: Other
License: FreewareSize: 3.0 KBReleased: 03 July, 2012
Download: http://www.yourownscreensaver.com/rokdownloads/YOS/Television/Star%20Trek/StarTrekDS9.exe
Free The Next Generation Screensaver 3.0Your Own Screensaver

Free The Next Generation Screensaver Star Trek: The Next Generation (often abbreviated to TNG) is an American science fiction television series created by Gene Roddenberry as part of the Star Trek franchise. Created about 21 years after the original Star Trek, and set in the 24th century from the year 2364 through 2370; about 80 years after the original ...

Free The Next Generation Screensaver 3.0 by Your Own Screensaver
Platform: WindowsDesktop- Screen Savers: Other
License: FreewareSize: 3.0 KBReleased: 29 May, 2012
Download: http://www.yourownscreensaver.com/rokdownloads/YOS/Television/Star%20Trek/StarTrekTNG.exe
Circuitscape for Mac OS X 3. 5. 2004Brad McRae & Viral B. Shah

Circuitscape is a free, open-source program which borrows algorithms from electronic circuit theory to predict patterns of movement, gene flow, and genetic differentiation among plant and animal populations in heterogeneous landscapes. Circuit theory complements least-cost path approaches because it considers effects of all possible pathways across ...

Circuitscape for Mac OS X 3. 5. 2004 by Brad McRae & Viral B. Shah
Platform: WindowsGraphic Apps- CAD
License: FreewareSize: 8.7 MBReleased: 07 April, 2012
Download: http://www.circuitscape.org/
Brain Explorer 2.2Allen Institute for Brain Science


Brain Explorer 2 is a desktop software application for viewing the human brain anatomy and gene expression data in 3D. Using Brain Explorer 2, you can:
View gene expression data in 3D: inflated cortical surfaces are colored by gene expression values of nearby samples.
View expression data from different donors side-by-side.
...

Platform: WindowsDesktop- Other
License: FreewareSize: 2.6 MBReleased: 19 January, 2012
Download: http://www.brain-map.org/BrainExplorer2/BrainExplorer2.msi
Cladist 6.0Institute for Cancer Research

CLADIST is an open-source and integrated platform that provides gene-gene / protein-protein correlation, nearest neighbourhood, clustering and visualisation tools to allow groups of genes or proteins with similar coexpression patterns to be directly projected onto networks of protein-protein interactions and transcriptional regulatory associations ...

Platform: WindowsEducation- Other
License: FreewareSize: 3.7 MBReleased: 19 January, 2012
Download: http://pstiing.licr.org/ketanp/Cladist.jar
GSA-SNP 1.0gsa-snp.sourceforge.net

GSA-SNP supports three data types, SNP, gene, and haplotype. The software automatically detects the data type by reading the first ten lines of the input file. The data file is a tab-separated ASCII text. Each row consists of a row identifier and one or more association values (e.g. p-values). The row identifier is determined by the data type.Requirements:

Platform: WindowsBusiness- Other
License: FreewareSize: 120.9 MBReleased: 13 March, 2013
Download: http://gsa-snp.sourceforge.net
miRPI 1.0mirpi.googlecode.com

MicroRNAs (miRNAs) are newly discovered class of non-coding small RNAs of 20-24 nucleotide length that regulate gene and protein expression in plants and animals. MiRNAs have so far been identified mostly by specific cloning of small RNA molecules, complemented by computational methods. Find conserved miRNAs with this tool.Computational identification ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 1.9 MBReleased: 21 May, 2013
Download: https://code.google.com/p/mirpi/
HapEvolution 1.0www.med.mun.ca

Detects gene-gene interactions from case-control haplotype data. Complex diseases involve multiple genes with low penetration which may be distributed over the genome. Most of the current haplotype association methods are typically restricted in length and consist of alleles from contiguous SNPs. These approaches have limited capacity to detect epistasis ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 1.6 MBReleased: 12 December, 2012
Download: http://www.med.mun.ca//medicine/home.aspx
Memorial University Of Newfoundland - University - Newfoundland - Labrador
NetDyn 1.0xungulab.com

Gene network growing simulation. NetDyn help you simulate gene network growing. A command prompt based tool. This software runs and generates a gene network with the given size. Several parmeters for the network are calculated: Average node connection, power law exponent, degree distribution, and so on.

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 13.0 KBReleased: 24 April, 2013
Download: http://xungulab.com
Genome2D 3.17molgen.biol.rug.nl

Genome2D visualizes a bacterial genome with all its individual genes on a single computer screen genome enables quick identification of biologically relevant information such as gene orientation, operon structure, transcriptional terminators or regulator binding sites. Bacterial genome analysis made easy.Using a simple input file subsets of genes can ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 13.0 MBReleased: 20 December, 2012
Download: http://molgen.biol.rug.nl
Gene Studio 0.71genestudio.sourceforge.net

Gene Studio is a utility for design and analysis of DNA molecules. It also allow to estimate molecular weight of a protein. It can be used for modeling of molecular cloning, sequence analysis and review of DNA molecules. Gene Studio can opens molecule files in FASTA and GeneBank format and stores information in XML files in GML format (Gene Studio ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 902.7 KBReleased: 28 April, 2013
Download: http://genestudio.sourceforge.net
STEM (Species Tree Estimation using Maximum) 1.1www.stat.osu.edu

STEM (Species Tree Estimation using Maximum) is is a software for inferring maximum likelihood species trees from a collection of estimated gene trees under the coalescent model. The software will either return the exact ML tree computed using the methodology of Liu and Pearl (2008; see also Roch and Mossel, 2008), compute the likelihood for a user-specified ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 1.7 MBReleased: 01 May, 2013
Download: http://www.stat.osu.edu
SynTReN 1.1.3homes.esat.kuleuven.be/~kmarchal

SynTReN is a generator of synthetic gene expression data for design and analysis of structure learning algorithms. Create synthetic gene expression data fast and easy.This network generation technique offers a valid alternative to existing methods. The topological characteristics of the generated networks more closely resemble the characteristics of ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 2.4 MBReleased: 07 February, 2013
Download: http://homes.esat.kuleuven.be/~kmarchal/
dChip 1.0sites.google.com/site/dchipsoft

Gene expression microarrays analysis made easy. dChip is for probe-level like the Affymetrix platform and high-level analysis of gene expression microarrays and SNP microarrays.
Gene expression or SNP data from various microarray platforms can also be analyzed by importing as external dataset. At the probe level, dChip can display and normalize ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 2.1 MBReleased: 21 February, 2013
Download: http://sites.google.com/site/dchipsoft//site/dchipsoft/
ErmineJ 2.1.20www.bioinformatics.ubc.ca

Gene Ontology analysis for high-throughput data. ErmineJ performs analyses of gene sets in expression microarray data or other genome-wide data that results in rankings of genes. A typical goal is to determine whether particular biological pathways are "doing something interesting" in the data. The program is designed to be used by biologists ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 13.7 MBReleased: 28 May, 2013
Download: http://www.bioinformatics.ubc.ca
GO-Elite 1.2.3go-elite.googlecode.com

Gene Ontology analysis made easy. GO-Elite is an software designed to identify a non-redundant set of Gene Ontology (GO) terms (1) or pathways (WikiPathways (2)) to describe a particular set of genes.This software is able to calculate advanced over-representation analysis (ORA) statistics from user gene lists, determine the minimal set of biologically ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 19.5 MBReleased: 23 February, 2013
Download: https://code.google.com/p/go-elite/
GEAX 1.5geax.sourceforge.net

Tool for visualizing the microarray of gene expressions. GEAX is a Java software used to visualize and analyze cross-species gene expression microarray data.The software allows comparisons based on fold-change, p-value, quantile matching, or a combination of criteria.Requirements:
* Java

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 68.8 MBReleased: 25 April, 2013
Download: http://geax.sourceforge.net


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