Progenesis SameSpots is the 2D image analysis product of choice if you use proteomics as a focus of your discovery research. Progenesis enhances your analysis workflow with significant improvements in speed, objectivity and statistical power. You also have the tools to perform detailed investigation of your data.

• Speed - faster and streamlined 2D workflow, with elimination of post analysis editing on the majority of experiments
• Objectivity - Highly objective analysis of single stain or 2D DIGE gel images
• Statistical Power - 100% matching and no missing values in your data for increased statistical power

    

Progenesis SameSpots v3.0 - unique analysis workflow

The features in Progenesis SameSpots v3.0 are a major step forward. Developed in response to customer feedback, the changes will add real benefits to your research.

Add images - Now you can add images to pre-analysed experiments you're no longer confined to your original experiment design and you save time on any re-analysis. This is also useful where you need to analyse samples gathered over a period of time, such as clinical proteomics studies.

Image QC - Your images go through a process of image quality assessment with feedback to help you optimise image capture - vital for accurate image analysis. Any positional errors introduced during scanning can be corrected using in-built tools (flip, rotate, invert) without interrupting your analysis workflow.

Align Images - You use this simple-to-use visual tool for highly advanced and automated image alignment. The result is perfectly aligned images at the pixel level, with 100% matching and no missing values, which radically reduces the need for editing spot detection and re-matching.

Pre-filter - This step allows you to remove artefacts from your analysis, based on normalised volume or spot area, and save you time at the review stage. You can also select areas of the gel to filter out, for example a damaged area, noisy area, spots on the edge of the gel or spots on the scanner bed.

Group setup - As well as setting up your overall group, such as control vs. treated you can also group images based on other characteristics, such as male/female, day of sample collection etc. This means you can measure differential expression patterns between any groups at the review stage. Any spot IDs remain the same across different groups so you get multiple views of the same analysis results.

Automatic Analysis - You can complete analysis of a whole experiment in this single step, which takes only minutes per gel. This incredibly rapid process includes SameSpots detection, background subtraction, normalisation and matching. Results are ranked, based on ANOVA p-value and fold change ready for validation.

Validate results - You can review statistically ranked lists of spots using a range of displays. Spots are ranked by p-value from the one way ANOVA analysis, with maximum fold change based on spot normalised volume displayed. This can be done to compare any groups you choose. The streamlined workflow allows you to work logically through the spot rank table, accepting individual spots as you go or simply selecting the top ranked spots for further study.

Tags - This feature allows you to quickly create sub-sets of interesting spots within any groups being compared. The spots can be tagged based on meta-data, expression measurements or any user-defined criteria making them a highly flexible but simple way to display selected spot populations. Tagged spots can be analysed further in Progenesis Stats where they become even more powerful for surveying your data.

In most cases you won't need to edit image analysis when you use Progenesis SameSpots, making it the most objective 2D analysis software available. However, if your images require some spot editing it only needs only to be performed on a single image with the effects applied across all the 2D images. This gives you a dramatically streamlined and simplified workflow.

Statistical Analysis - Progenesis Stats is a simple-to-use tool that allows you to easily apply powerful statistical analysis and make reliable conclusions. Principle Components Analysis (PCA), Correlation Analysis and Power Analysis are included to explore the trends in your data. The tests enable you to measure,

• How your data clusters within your experiment. This can validate the hypothesis used to create the experimental groups and indicate any outliers in your data
  
• How similar spots are in terms of their expression profile. This can help you find additional drug targets or other proteins involved in processes related to the one you're studying
  
• The power of your experiment. This will tell you if you've run enough replicates for valid results and is becoming a requirement for publishing research

Any spots you select as being interesting from these tests can be mapped onto a whole gel image to show their location for further validation.

      

Spot Picking - You can now use Progenesis SameSpots unique alignment to align an analysed image to a picking gel and create highly accurate spot picking. The workflow supports manual picking, those using the GelPix, ProPic™ and Ettan™ spot cutting robots and there is also a generic robot option which outputs the spot picking coordinates.

Share results - Your report at the end of the workflow provides an overview of the protein spots you defined as significant, interesting or selected for picking. The printable report can be saved for future reference and is a quick way of sharing your results with colleagues and publishing data.

 

Progenesis SameSpots v3.0 Feature Summary:

• Analyse single stain and 2D DIGE experiments. Supports .tiff, .img, .png, .gel, .mel images
  
• Add images to any existing experiments or simply create new experiments
  
• Optimise analysis using initial automatic image quality assessment and feedback
  
• Perfect image alignment at the pixel level using a unique, simple visual application
  
• Exclude artefacts, selected spots and any areas of your gel from the analysis
  
• Create multiple image groups to compare different views of data in the same experiment
  
• Automatic analysis of the aligned image set and correction of dye related offsets in DIGE
  
• Automatically create a ranked list of significant spots based on ANOVA p-value, fold-change and q-values for any groups you compare
  
• Perform editing on a single image for a dramatically simplified workflow
  
• Quickly create populations of spots with shared characteristics using tags
  
• Confirm hits using 2D and 3D montage views, expression profiles and spot data tables
  
• Easily apply multivariate statistical analysis on 100% matched data
• Use Principle Components Analysis, Correlation Analysis and Power Analysis to survey your data
  
• Display interesting spots on a whole image view using Progenesis Stats
• Pick spots using a unique image alignment approach for high accuracy
  
• Supports most common spot cutting robots including GelPix, ProPic™ and Ettan™
  
• Apply INCA to review results with and without noise effects and help reduce false positives

Download Progenesis SameSpots to try for yourself, or have a look at our case studies to find out how other researchers are benefiting from SameSpots.