Two-Dimensional Polyacrylamide Gel Electrophoresis - A Practical Perspective

Basics and recent advances of two dimensional- polyacrylamide gel electrophoresis

“…This technique became more popular and comprehensive after the prime advances and high resolution 2-DE modification [1]. Actually, the modification established by O’Farrell allowed 2-DE technique to resolve up to 5000 protein- representing spots in an even 2 dimensional distribution and enabled precise separation of protein spots with high accuracy [2]. …”

2D-gel spot detection and segmentation based on modified image-aware grow-cut and regional intensity information

“…PDQuest [18], DeCyder 2D [19], Melanie 7 [20], ImageMaster 2D [21], Delta2D [15] and Progenesis Samespots [16]. Each software has its respective advantages and disadvantages and achieves a different level of success in dealing with the challenges of 2D-gel image spot detection and segmentation [12,22]. An important observation is that all these software tools are dependent on manual parameter tuning, thus requiring human intervention that can lead to subjective results.…”

“…The fourth stage is performed in order to match the corresponding protein spots from different images. Two different workflows for 2D-gel image analysis can be followed [11,12]. In the straightforward workflow, spot detection and segmentation are performed prior to image-alignment [13,14].…”

“…Due to the importance of 2D-gel image analysis, many commercial software solutions have been developed [12]: e.g. PDQuest [18], DeCyder 2D [19], Melanie 7 [20], ImageMaster 2D [21], Delta2D [15] and Progenesis Samespots [16].…”

Can Proteomic Profiling Identify Biomarkers and/or Therapeutic Targets for Liver Fibrosis?

“…Running internal standard within all gels also improves gel-to-gel spot matching and enables for statistically strong comparisons between protein samples [63]. At the end, protein spots cut from 2D gels were identified by mass spectrometry [64].…”