Evidence Progenesis LC-MS works

Here are some headlines and stories from Progenesis LC-MS users and our own software developers that show how its new analysis approach can benefit your research with fast, objective workflows and statistically valid results.

Reproducibility

Progenesis LC-MS is being developed to help you overcome the biggest challenge facing everyone in quantitative proteomics today, cross-lab reproducibility of results. If you can achieve this then you can be confident in measuring real biological effects that can make a difference, not just reporting artefacts of an experimental approach.

Low technical variance for quantification of 200,000 features. Label free LC-MS analysis for integrated preclinical pharmaceutical toxicology was carried out at University College Dublin. The approach using Progenesis LC-MS demonstrated excellent analytical reproducibility, with an average CV of 10.9 %, and good proteome coverage with relatively modest instrument time required per sample. More...

Speed

Progenesis LC-MS allows you to quickly and easily visualise complex data. Intelligent peak modelling and data reduction enables the analysis of more data, more rapidly. Fast alignment and detection means you can quickly focus on your MS2 identification of interesting peptides and run enough replicates to get reliable results in less time.

Fast, accurate and objective result for protein quantification. Dr. Alexander Ivanov (Harvard School of Public Health in Boston), gave us a challenge. Accurately quantify and identify proteins in the 2-1000 fmol range using Progenesis LC-MS but do it blind! Quantification of 9 LC-MS/MS runs, ~62MB/run, took 15 minutes excluding database searches. All the known proteins within the mixture were correctly detected and every one showed a linear response of calculated protein abundance vs. injection volume with R2 values >0.9. More...

Handling complex samples results in huge time savings. Sample run times can be long; a 40 fraction offline/3 hour online separation strategy can require >5 days data capture/sample. Progenesis LC-MS applies an approach that handles complex samples, reducing the need to pre-fractionate, allow more optimal experiment designs and reducing drift or equipment failure between runs More...

Objectivity

The step-wise and guided analysis within Progenesis LC-MS promotes a consistent approach based on objective, statistical measurements. This helps you to reproduce results between experiments and across labs.

Guided workflows and automated analysis for your label-free LC-MS data. Progenesis LC-MS applies automated LC-MS alignment algorithms with a guided step-wise to objectively analyse your label-free LC-MS data. Peptides are automatically ranked in order of p-value and fold change between groups. Using data tables, visualisation tools and expression profile data, peptides of interest can be selected for further analysis. More...

Statistics

Multivariate statistics allow you to visualise and explore relationships within your complex biological data. Progenesis LC-MS provides a complete dataset so your multivariate statistical analysis is valid and robust.

Discover significant protein behaviour that may have been missed with traditional approaches. Alignment of multiple LC-MS runs is necessary for statistical analysis of experimental data. It enables you to compare different experimental conditions through the use of biological and/or technical replicates, a prerequisite for any reproducible study. Progenesis LC-MS solves the alignment problem so you can perform statistically robust analysis of LC-MS data and highlight significant expression behaviour in your experiment with confidence. More...