|
Software
Package
|
University/Company
|
Interface/Operating
System
|
|
Acuity
1.1
|
Axon Instruments
|
Windows
|
|
AIDA Array
|
Raytest GmbH
|
Windows
|
|
Affymate
|
Array Genetics
|
Web
|
|
AMIADA
(Analysing MIcroArray DAta)
|
Hong Kong University
|
Windows
|
|
ArrayMiner 2
|
Optimal
Design
|
Windows/Mac
|
|
ArraySCOUT 2
|
Lion bioscience AG
|
Windows/Unix
|
|
ArrayStat 1.0
|
Imaging
Reasearch Inc
|
Windows
|
|
BASE (BioArray Software Environment) 1.0.1
|
Lund
University
|
Linux
|
|
Bioconductor
|
http://www.bioconductor.org/ |
R
|
|
BioMine 1.0
|
Gene Network
Sciences Inc
|
Java
|
|
BRB
ArrayTools 2.0
|
Molecular
Statistics and Bioinformatics Section, Biometric Research Branch, NCI
|
Windows
|
|
CAGED
(Cluster Analysis for Gene Expression Dynamics)
|
Children's
Hospital's Informatics Program, Harvard Medical School
|
Windows
|
|
Cleaver
1.0
|
Stanford
Biomedical Information
|
Web
|
|
Cluster Identification Tool (CIT)
|
Van
Andel Research Institute
|
Windows
|
|
CLUSFAVOR
(CLUSter and Factor Analysis Using Varimax Orthogonal Rotation)
|
Molecular Biology
Computation Resource, Baylor College of Medicine
|
Windows
|
|
Cluster
|
Michael
Eisen's lab; Lawrence Berkeley
National Lab (LBNL)
|
Windows
|
|
CTWC
(Coupled Two-Way Clustering)
|
Weizmann
Institute of Science
|
Web
|
|
Cyber T
|
UC Irvine
|
Linux/Unix with R
statistical language/Web
|
|
DNA-arrays
analysis tools GEPAS (Gene Expression Pattern Analysis Suite)
|
National
Spanish Cancer Center (CNIO)
|
Web
|
|
DNA-Chip Analyzer (dChip)
|
Wong
Lab, Department of Statistics, Harvard University
|
Windows
|
|
Engene
(Gene-Expression Data Processing and Exploratory Data Analysis)
|
Computer
Architecture Department, Universidad de Malaga
|
Web
|
|
Expression
Profiler
|
European Bioinformatics
Institute EBI
|
Unix/Web
|
|
ExpressionSieve
|
BioSieve
|
Windows/Linux
|
|
Expressionist
|
GeneData
|
Java
|
|
Freeview
& FreeOView
|
University of
Ljubljana, Slovenia
|
Java
|
|
Fuzzy
Clustering
|
University of Applied
Sciences Fachbereich Elektrotechnik und Informatik
|
Unix
|
|
GAAS
(Gene Array Analyzer Software)
|
Bioengineering
Department, Politecnico di Milano, Italy
|
Windows
|
|
GE2
(GeneExpression Data Simulator)
|
University of Pittsburgh
& UPMC
|
Web
|
|
GEDA
(Gene Expression Data analysis)
|
University of Pittsburgh
& UPMC
|
Web
|
|
Gene Cluster 2
|
Whitehead
Institute Centre for genome research
|
Java
|
|
GeneDirector 2
|
BioDiscovery
|
Windows
|
|
GeneLinker Gold 2.0
|
Molecular
Mining Corporation
|
Windows
|
|
GeneMaths
|
Applied
Maths
|
Windows
|
|
GeneSight
3.0
|
BioDiscovery
|
Windows
|
|
GeneSpring 4.2
|
Silicon
Genetics
|
Windows/Mac/Linux
|
|
Genesis
|
Bioinformatics
Group, Institute of Biomedical Engineering, Graz University of Technology
|
Java
|
|
GeneSifter
|
Vizx Labs, LLC
|
Web
|
|
Genetraffic
1.0
|
Iobion Informatics
|
Linux/Web
|
|
GeneViz 2.0
|
ContentSoft AG
|
Windows
|
|
GeneWeaver
|
Visual Bioinformatics
|
Windows
|
|
Genowiz
|
Ocimum Biosolutions
|
Mac OSX, Windows, Linux and Unix
|
|
GENOWIZARD
|
Genotypic Technology
|
Windows,
Linux
|
|
INCLUSive (INtegrated CLustering, Upstream Sequence
retrieval and motif)
|
Katholieke Universities Leuven
|
Web
|
|
J-Express
2.1
|
MolMine
|
Java
|
|
MA-ANOVA 1.2
|
Churchill Statistical
Genetics Group
|
Matalab
|
|
Machaon CVE (Clustering and Validation Environment)
|
Trinity College Dublin
|
Java
|
|
MAExplorer
|
NCI
Laboratory of Experimental and Computational Biology
|
Java
|
|
MAP (MicroArray Project System)
|
NIEHS Microarray Center,
National Institute of Environmental Health Sciences
|
Access
|
|
Microhelper 1.02
|
Chang
Bioscience
|
Windows NT/ Mac OS X
|
|
Microtracker
|
Ocimum Biosolutions
|
Windows
|
|
Partek
Pro 2000, Partek Discover, Partek Predict
|
Partek
|
Unix/Linux/Windows
|
|
PAM
(Prediction Analysis for Microarrays)
|
Tibshirani
Lab,Department of Statistics, Stanford University
|
Excel Add-in/R-package
|
|
PARTISAN
arrayLIMS
|
CLONDIAG chip
technologies
|
Windows
|
|
R cluster
|
National Center for
Genome Resources (NCGR) GeneX analysis server
|
Web
|
|
Rosetta Resolver Version 3.0
|
Rosetta
Biosoftware
|
Unix server, Java client
|
|
SAM (Significance Analysis of Microarrays)
|
Department
of Statistics, Stanford University
|
Excel add-in/ Web
|
|
SilicoCyte
|
Cytogenomic Inc
|
Windows 2000
|
|
Silicon Genetics Enterprise Solution
|
Silicon
Genetics
|
Windows/Unix/ Linux
|
|
Soochika
|
Strand
Genomics
|
Windows/Linux/Mac
OS X
|
|
SpotFire
Decision Site for Functional Genomics
|
SpotFire
|
Windows
|
|
slcview
1.1.1
|
Department
of Developmental Biology, Stanford University
|
Unix/Linux/Web/Windows/Mac
|
|
sNet-SOM
(supervised Network Self-Organized Map)
|
Department of Medical Physics, School of
Medicine, University of Patras, Greece
|
Windows
|
|
SNOMAD: Standardization and NOrmalization of
MicroArray Data
|
Pevsner Laboratory,
Johns Hopkins University School of Public Health
|
Web
|
|
TIGR ArrayViewer
|
The Institute of
Genomic Research (TIGR)
|
Java
|
|
TreeView
|
Michael
Eisen's lab; Lawrence Berkeley
National Lab (LBNL)
|
Java
|
|
VERA & SAM
|
Institute
for Systems Biology
|
Windows/
Linux/ Unix
|
|
XCluster
|
Stanford
University
|
Unix/Linux/Mac/Windows
|
|
XOL
|
X-Mine
|
Web
|
|
Xpression NTI 1.1
|
Informax Inc
|
Windows
|