The almaZen
AnaLogic module allows the pre-processing, analysis and
visualization of gene expression experiments. AnaLogic is designed
to immediately engage users by organizing and presenting tasks
following the structure of a typical microarray project.
AnaLogic considers each comparative experiment as being composed
of several hybridizations (replicates) that provide very important
information about the reproducibility of the results.
Visualize
The results of any comparative experiment can be accessed and
visualized using a powerful - Experiment Viewer. The experiment
viewer is designed to visualize the effects of applying different
biological and statistical filters to the data in real-time.
Statistical and biological information is displayed on one page in
scatter plots, zoom windows and tables.
Detect
Comparing microarray real images and numerical results is
immediate and easy. This feature enables you to detect experimental
artifacts that could affect the quality of final results, decreasing
the proportion of differentially expressed genes that are
unreliable.
Evaluate
Several statistical and biological filters can be applied with
AnaLogic, allowing you to evaluate the effect of applying a certain
threshold or a combination: local z-scores, p-values, fold changes,
etc.
Paired
t-tests ( based on ratios) and unpaired t-tests ( based on
intensities) can be easily performed with AnaLogic. You can minimize
the number of false positive results by adjusting the p-values by
FWER or FDR methods.
Export
You can export the details of any analysis in a tabulated-text
format or in an easy-to-read PDF report. The PDF report summarizes
information about the parameters used, scatter plots with filtered
data and lists the most important features of the highlighted genes.
These PDF reports are automatically generated by AnaLogic and can be
saved at any time.
Clustering
analysis
The AnaLogic module also includes four unsupervised clustering
algorithms (Aggregative, SOTA, K-Means and SOMs) and dynamic
visualization of the results. Two powerful viewers-- the Tree Viewer
and the Gene Group Viewer --display interactive gene expression
trees and allow in-depth analysis of any relevant group of
co-regulated genes.
