Evidence Progenesis SameSpots works

Here are some headlines and stories from Progenesis SameSpots users and our own software developers that show how its new analysis approach can reproduce 2-DE based quantitative proteomics across-labs with fast, objective workflows and statistically valid results. There are more references, customer quotes and posters that also highlight the difference Progenesis SameSpots can make to your proteomics research.

Gain confidence in running high quality 2D gels. Obtaining reproducible 2D gels with well-resolved spots is a challenge, especially if you’re starting out in the field. In this study Progenesis SameSpots was used to measure how well 2D gels run in 17 different labs, using a generic protocol, compared to a gold standard set of gel images. At the first try 60% of the labs produced gel images that fell within 95% confidence limits of the gold standard set. This work will lead to features that you can use to help generate reproducible data. More...

Inter-lab reproducibility with CV’s <20% for top 30 differentially expressed proteins. A multi-laboratory study was set up by the ProteoRed network with differential analysis by Progenesis SameSpots. The results showed good within-lab and across-lab reproducibility with >70% of spots showing CV’s <20% in both cases. Progenesis SameSpots also gave a clear increase on well-matched spot detection, particularly for single-stain images. More...

Progenesis overcomes the challenge of cross-lab reproducibility for proteomics. Differential expression analysis of 2D gels with Progenesis SameSpots has been shown to be reproducible across labs. 5 labs independently ran 2D gels and automatic analysis of the images generated results with better similarity, >84% in all cases, of the top 50 differential spots compared to unconstrained user controlled analysis. More...

Quality control in your proteomics workflow improves reliability of results. Avoiding the introduction of variance into data analysis improves the statistical power of your results, making them more reliable. Early introduction of quality control measures on the images to be analysed is a key help in reducing variance. Examples of poorly controlled image capture show the importance of image QC measures provided upfront by Progenesis SameSpots. More...

Complete analysis of challenging images in less than five minutes per gel. A European pharmaceutical company had previously shelved a 20 gel experiment because the challenging images couldn't be analysed in a realistic time. Progenesis SameSpots took an average of 4 minutes per gel to generate a hit list of 30 interesting spots. More...

Save time and money while meeting high demands of 2D analysis. The Biomolecular Resource Facility (BRF) at The University of Texas Medical Branch process hundreds of 2D gels a year. This is not a simple process, nor is it cheap in time, effort, or expense. Progenesis SameSpots increased throughput for this group and resulted in tremendous savings in manpower and expense over a year. More...

Accelerate your 2D gel analysis with increased statistical confidence. Researchers at the Istituto di Ricerche Farmacologiche "Mario Negri" had challenging 2D gel images. A conventional approach took 4‐6 hours analysis per gel and 3‐4 weeks work to analyse each experiment. Progenesis SameSpots accelerated data analysis and drastically simplified the proteomics workflow. This meant more replicates could be included in their experiments to produce statistically superior results. More...

Proven quantitative accuracy and objectivity for your 2-DE analysis. An independent study comparing consistency of spot matching showed Progenesis SameSpots outperformed other software packages. Data from the same lab also was also used to show accurate measurement of 2D gel protein loading over a 100-fold range as well as correctly and objectively detecting protein expression changes of known protein standards in a complex sample. More...

Easy-to-use workflow with 100% spot matching. The Laboratoire d’oncopharmacologie at the Centre Régional de Lutte Contre le Cancer Paul Papin had used a traditional, subjective approach to quantitative proteomics. This gave them problems with spot matching, difficulties in use and laborious analysis. With the objective workflow of Progenesis SameSpots they feel confident with 100% matching and find it easy to use. More...

Get the same results whatever your analysis experience. Progenesis SameSpots proved to be objective for 2D analysis across 5 users of low to high experience. Each person was asked to analyse a set of gels and their results were compared to our in-house expert analyst. There was a high degree of correlation between the relative spot rankings, each user’s spot list contained >90% of the same spots as the expert. This could not have been achieved using a traditional approach to 2D analysis. More...

Get fast, robust, statistically valid results from your 2-DE analysis. The Cardiac Proteomics group at St. George's University of London use 2D gels to identify protein changes linked to heart disease. Progenesis SameSpots includes univariate and multivariate statistical tests and the group used PCA to quickly identify and reject outlying samples during a crucial experiment. Without this benefit they could’ve easily encountered a number of problems further along the analysis and the statistics wouldn’t have been as robust. More...

Identification of technically-influenced protein changes in 2D-PAGE experiments. Progenesis SameSpots gives you a structured approach to identify significant protein changes. It’s easy to perform automatic analysis with no prior assumptions and apply multivariate statistics. An experiment design was tested using this approach to reduce data complexity and assist in finding relationships that may have been missed by exploring each measure independently. More...

Ask simple questions to analyse your data in an unbiased way. Progenesis SameSpots solves the difficulty of matching data completely, which allows advanced statistical methods to be applied reliably. This study shows the data Progenesis SameSpots produces is of high quality and allows you to easily apply multivariate statistics by asking simple but important questions. This allows you to discover proteins of interest in a statistically robust and repeatable way. More...

Solve the problem of missing values in your proteomics data. With a traditional 2D gel analysis approach some variables have no measurement recorded. This can be because a spot wasn't detected or because it was detected but matched incorrectly. As an extra problem every gel you add to an experiment increases the chance of introducing more missing values. To correct these problems manually is subjective, error-prone and time consuming. Progenesis SameSpots produces data with no missing values, regardless of how many replicates you run. More...