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BioNumerics 2-D Gel Types Module

For an overview see BioNumerics.

2-D Gel Types  is also available in a standalone 2-D gel analysis software called 2DExpert

- Analysis of 2-D gel TIFF files of any size, resolution and complexity

- Automatic and interactive tools for

  • Non-linear background removal
  • Spike removal
  • Streak removal
  • Tone-curve optimization
  • Noise filtering (Median, Gaussian)

- Powerful automatic spot detection algorithm, with adjustable parameters for
  • Estimated spot size
  • Minimal profiling
  • Minimal spot area
  • Constriction sensitivity (separation of conglomerate spots)
  • Depression sensitivity (separation of conglomerate spots)

- Real-time preview window for all above edit functions: finding optimal
  settings is greatly facilitated

- Ergonomic shortkey functions for comprehensive manual editing, including
  • Adding spots
  • Deleting spots
  • Splitting spots
  • Merging spots
  • O.D. calibration

- Calibration tools for spot concentration

- 2-dimensional non-linear regression for molecular weight and IP determination



- Various graphical display functions, including

  • Multicolor or rainbow palettes
  • Emboss view for easily detecting conglomerate spots or oversaturated areas
  • Movie-like rotatable 3-D view with differential color according to intensity

- Powerful automatic gel matching algorithm for quick and reliable normalization

- Convenient real-time drag-and-drop normalization tools based upon
  • Overlay mode: red and blue gels with overlapping spots black
  • Dynamic switching mode

- Adjustable automatic spot identification algorithms based upon the use of
  synthetic or real reference gels

- Possibility of merging gels with different pH ranges into a single
  composite analysis

- Possibility of co-analyzing images of the same gel after different
  exposure times, with automatic detection of spots with optimal intensity

 - Powerful database environment for proteins (BioNumerics)

- Smart and intuitive query tool for designing spot queries of any complexity

- Extensive protein spot description with possibility of storing full
  Swissprot, EMBL or GenBank information (in conjunction with Kodon), plus
  a number of additional user-defined information fields

- Interactive analysis tools including joint comparison of different gel
  images with comprehensive documentation of spots/proteins

- Very powerful and unique analysis tools to identify groups of spots with
  similar or dissimilar behaviour, using the variety of grouping,
  identification and statistical tools of BioNumerics

- Co-analysis of 2-D protein gels and microarrays using BioNumerics'
  "2D" and "GeneMaths" applications

- Complete analysis of any protein or EST at nucleic acid or amino acid
  level using BioNumeric's powerful "Molecular Analysis module" (Kodon software)