Melanie is a software which is continuously at the fore-front of 2D gel analysis. Melanie lets you detect real differences in protein expression with high objectivity, sensitivity and confidence.Clear image analysis guidance and robust default settings will give new users an easy start.

1. Nixon Mendez
Department of Bioinformatics
Melanie

2. SAMPLE GEL IMAGES

3. •Melanie is a feminine given name derived from
the Greek μελανία (melania), "blackness“
•Melanie is 2D Gel Analysis Software
•Visualize, Explore and Analyze
•Commercial Software
Melanie

4. • MelanieTM software is continuously at the fore-front of 2D gel
analysis. During the last 30 years, it has constantly been
improved and maintained by a team of the renowned SIB Swiss
Institute of Bioinformatics. This access to world class talent,
expertise and technology allows us to offer you the most
relevant solutions.
• MelanieTM lets you detect real differences in protein expression
with high objectivity, sensitivity and confidence. This is made
possible through image quality control, 100% spot matching and
the use of statistical tests that take into account the design of
your experiment. With less false positives, you save time and
money otherwise wasted on downstream analysis of protein
changes that are merely due to biological variation.
Melanie

5. • Your analysis time will be significantly reduced with the intuitive
step-by-step workflow and powerful strategies which increase
efficiency of alignment with no need for spot editing.
• Clear image analysis guidance and robust default settings will
give new users an easy start. However, MelanieTM lets you stay
in control of your analysis. It offers unequaled flexibility at all
levels, from image display choices, through normalization
options and advanced workflow settings.
• MelanieTM‘s free viewer functionality permits you to easily share
your work and scientific discoveries so you can collaborate with
colleagues all over the world.
Melanie

6. •Microsoft® Windows® XP, Vista, 7 or 8
•Administrative permission to install Melanie
•At least 500 MB RAM
•Recommended: Intel dual-core processor with
2GB of RAM
•Color Resolution – 24 bit
•Screen Resolution – 1024 x 768
SYSTEM REQUIREMENTS

7. GUI

8. •Input formats - .gel, .mel, .tiff, .img, .isc
•Resolution: 150 – 300 dpi
•Image Depth: Min 28 - 256 gray shades
•Calibration - More than 100,000 encode the gray
values using a nonlinear calibration curve to conserve
as much information as possible
•Image editing: General purpose graphics software
such as Adobe PhotoshopTM ignore or even remove
calibration information
IMAGES

9. Zoom

10. 3D View

11. •A spot delineates a small region in the gel where
protein is present.
•Non-DIGE images - Melanie algorithm
•DIGE images - GE Healthcare’s DeCyder 2D
algorithm & Melanie algorithm
Spot Detection

12. • Smooth - It fixes the number of times Melanie smooths
the image before detecting spots, using a smooth-by
diffusion algorithm
• Saliency - It indicates how far a spot stands out with
respect to its environment.
• Min Area - It eliminates spots that have an area smaller
than the specified threshold.
• Spot quantification: The software automatically
computes the amount of protein present in each spot.
Spot detection parameters

13. •To study the variations in protein expression
among a series of gels, the gels should be
matched together
•Analyze Gels: Study protein expression changes
within a set of gels.
• The analytical methods used include scatter
plots, descriptive statistics, and histograms
Data analysis

14. Report
Table, Histogram and Scatter Plot

15. THANK YOU