Overview
 The
large amounts of images generated in research laboratories
today have created a need for image quantification and
analysis as well as searching and data mining capabilities.
Without these capabilities, it is impossible to effectively
mine and use the data generated by hundreds or thousands
of gels.
ProteinMine™
ProteinMine™ is a web based 2D gel analysis software that uses the industry’s most current and sophisticated algorithms for analysis. It speeds decision-making by reducing the likelihood of choosing unworthy proteins. ProteinMine™ rapidly identifies significant differences in protein expression between two gels or among hundreds of gels. All data can be easily accessed, mined and analyzed through ProteinMine’s™ central image and data repository.
Advantages
| Features|
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Advantages:
Reduced manual analysis time
- Sophisticated algorithms that automatically detect,
align and match spots across gels.
- Analysis time is
reduced from weeks and days to hours and minutes
- During gel analysis, each spot is described by 27
unique characteristics that are objectively extracted,
quantified, and displayed. Robust results.
- Analysis of a large volume of 2D gels.
- Gel data is objectively extracted and quantified
resulting in consistent and reproducible conclusions.
Data integrated across proteomics workflow
- Linkages with external databases and statistical
packages.
- Statistical results can be imported back into ProteinMine.
Dynamically designed workspace
- Centralized workspace for image processing and analysis.
- Easy navigation through the 2D image analysis workflow.
Powerful visual comparison tools for images
- Gel alignment tool for identification of protein
expression changes.
- Customized viewing capability.
- Different modes to show protein expression through
a series of gels.
Scalable architecture
- Platform independent.
- ProteinMine™ can be deployed to serve organizations of any size.
Overview | Features
ProteinMine™ Features:
Superior automated spot detection
- Robust spot identification with minimum user intervention.
- Highly accurate spot quantification.
- Unique information assigned to each protein spot
based on protein ID.
- Interactive spot filter based on a range of values
for spot properties.
- Integrates with Propic™ spot picker.
Statistical database mining with interactive view
- Comparative tables and extensive reports.
- Histograms to visualize expression profiles.
- Factor analysis enabling identification of similar
gels/spots.
Integration with 3rd party statistical analysis applications
- Ensures maximum value that can be derived from the spot matching and other data.
- Active participation with GeneData™ and their Impressionist Protein Expression Software.
Integration with external databases
- Web service enables access to ProteinMine™ gel and spot data from a 3rd party application.
- Integrates mass spec data with the spots.
- Integrates with Cimmaron™ LIMS system using the API.
Unprecedented image management and mining
- Comprehensive annotation capabilities
that provide context to protein images.
- Protein expression pattern searching
for mining of protein expression.
- Database can be queried with complex
questions.
- Helps search for specific mechanism
of action of drugs.
- Anytime, anywhere access to data through
a browser based GUI.
Fully automated gel alignment
- Aids in quality control and accurate
gel comparison and expression analysis.
- Match tables can be exported, further
analyzed and re imported back to ProteinMine™.
Data normalization
- Suite of 12 different normalization methods for scientists to extract appropriate densitometry from gels in the format they prefer.
- Factors include protein loading, staining
protocols and gel running conditions.
How ProteinMine can help your research
ProteinMine™ helped one research group determine
that a compound that appeared to have in
vitro potential for inhibition of topoisomerase
(acting similarly to novobiocin) actually
had a different MOA. In vivo results indicated
that the protein expression pattern resulting
from treatment with this new compound was
a closer match to an unfavorable compound.
Result: The customer redirected the efforts
of six chemists to another, more promising
compound at a considerable time and cost
savings.
Eliminating
Problem Compounds Early:
A ProteinMine custom solution using BioImagene SIMS™ image managment
Once ProteinMine has retrieved a set of
gels with similar patterns from a SIMS™ image management database, the challenge is determining what the similarities may mean. A customized image-driven SAR (required customization by the BioImagene Professional Services Group) can help by giving scientists a way to relate the 2D gel data to other, related data of different types. By customizing SIMS™ to
link it to other databases, researchers can
look at data in the context of other image
and non-image data. The ability to link images
with other proteomics or genomics data provides
a broader picture of how protein expression
relates to a compound's biological impact.
Overview | Advantages
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