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DeCyder™ 2-D Differential Analysis Software v7.0- Fully optimized and integrated to the 2-D DIGE platform.
- Automated analysis, significantly reducing hands-on time.
- Internal standard approach, increasing accuracy and simplifying gel-to-gel matching.
- No spot matching within gels, eliminating matching errors.
- Automatic Oracle client and server installation, offering easy project handling and data security.
- DeCyder™ Extended Data Analysis (EDA), a multivariate statistics module for easier and faster biomarker discovery, included as standard.
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DeCyder™ 2-D Differential Analysis Software v7.0
Technical Information
DeCyder 2-D v7.0 startup screen showing analysis workflow.
Four views are displayed in the DIA user interface: gel view (top left), histogram view (top right), 3-D view (bottom left), and spot table view (bottom right).
DeCyder™ 2-D Differential Analysis Software (DeCyder 2D) v7.0 is specifically designed for 2-D Fluorescence Difference Gel Electrophoresis (2-D DIGE)analysis and is a key element in the Ettan™ DIGE system. Unlike other 2-D electrophoresis methods, DIGE allows the option of reference to an internal standard for each spot, effectively eliminating gel-to-gel variation and delivering highly accurate, reproducible, and dependable quantitation. DeCyder 2D applies a gel comparison method that introduces zero statistical error, offering reliable data and analysis for 2-D DIGE experiments.
DeCyder 2-D v7.0 consists of several modules:
- Differential In-gel Analysis (DIA)¾co-detection, background subtraction, normalization, and quantitation of spots in images from a single 2-D DIGE gel.
- Biological Variation Analysis (BVA)¾matching multiple 2-D DIGE gels for comparison and statistical analysis of protein abundance changes.
- Extended Data Analysis (EDA)¾providing advanced statistical analysis for characterization and classification of biological samples based on protein expression data.
- Batch Processor¾automated detection, quantitation, matching, and comparison of multiple 2-D DIGE gels.
- Image Loader¾importing images into an Oracle database.
- Administration Tools¾database administration, maintenance, and user access control.
- XML Toolbox¾exporting spot data
from DIA or BVA modules for further downstream analysis.
DeCyder 2D v7.0 includes functionalities not present in previous versions. An integrated Image Editor enables preparation of raw images (cropping, rotating, etc.) prior to analysis and also allows high-resolution images to be exported. The Warping function improves matching accuracy and simplifies the evaluation of matching results. Improved gel image functionality includes gel overlay for match editing and additional spot editing functions. The ?Save as? feature allows data to be saved at any stage of the process.
The DeCyder EDA module, standard in DeCyder 2D v7.0, offers support throughout the statistical analyses of 2-D DIGE data, with no requirement for statistical expertise. DeCyder EDA provides multivariate statistics tools for easy and fast data mining of 2-D DIGE data. The software enables the combined analysis of different datasets, aiding the biological interpretation of results by matching with data retrieved from public and local databases.
References
Results from Principal Components Analysis calculations using DeCyder EDA.
- Alban, A. et al. A novel experimental design for comparative two-dimensional gel analysis: two-dimensional difference gel electrophoresis incorporating a pooled internal standard. Proteomics 3, 36-44 (2003).
- Yan, J. X. et al. Fluorescence 2-D Difference Gel Electrophoresis and mass spectrometry based proteomic analysis of Escherichia coli. Proteomics 2, 1682-1698 (2002).
- Unlu, M. et al. Difference gel electrophoresis: a single method for detecting changes in protein extracts. Electrophoresis 18, 2071-2077 (1997).
- Tonge, R. P. et al. Validation and development of fluorescence two-dimensional difference gel electrophoresis proteomics technology. Proteomics 1, 377-396 (2001).
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Product related documents
Brochure
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, histogram view (top right), 3-D view (bottom left), and spot table view (bottom right).'))
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