Pharma perspectives: The influence of LC-MS innovation on drug development outsourcing by Kean Woodmansey | 0 CommentsIt is no secret that (bio)pharmaceutical research and development is complex, both scientific and regulatory processes. Working for a contract research organization and more recently for SCIEX has provided an interesting perspective on trends the market experiences that affect many of us.
Nitrosamines: Where are we now? by SCIEX Community | 0 CommentsNitrosamines are a large group of N-nitroso compounds that share a common functional N-N=O group. They are produced by a chemical reaction between a nitrosating agent and a secondary or tertiary amine. Back in 2018, nitrosamines suddenly found themselves in the spotlight when they were unexpectedly detected in medications for high blood pressure. Since then, they have been found in several other prescription medications, including those for heartburn, acid reflux and diabetes, resulting in manufacturers recalling some common medications.
Automation integration for the Echo® MS system by Christie Hunter | 1 CommentThe Echo® MS system is specifically designed to be compatible with a variety of automation options to allow labs the flexibility to personalize their setup to meet their specific needs. To help you make the best decisions for your own lab, here are the answers to some...
Pharma perspectives: The influence of LC-MS innovation on drug development outsourcing by Kean Woodmansey | Blogs, Pharma, ZenoTOF 7600 systemIt is no secret that (bio)pharmaceutical research and development is complex, both scientific and regulatory processes. Working for a contract research organization and more recently for SCIEX has provided an interesting perspective on trends the market experiences that affect many of us.
Nitrosamines: Where are we now? by SCIEX Community | Blogs, Pharma, QTRAP / Triple QuadNitrosamines are a large group of N-nitroso compounds that share a common functional N-N=O group. They are produced by a chemical reaction between a nitrosating agent and a secondary or tertiary amine. Back in 2018, nitrosamines suddenly found themselves in the spotlight when they were unexpectedly detected in medications for high blood pressure. Since then, they have been found in several other prescription medications, including those for heartburn, acid reflux and diabetes, resulting in manufacturers recalling some common medications.
High mass tuning calibration for ZenoTOF 7600 by Gregg Czerwieniec | Bio Tool Kit, Development, Questions, ZenoTOF 7600 systemHi,
Automation integration for the Echo® MS system by Christie Hunter | Echo MS, Sample Preparation, SCIEX information, TechnologyThe Echo® MS system is specifically designed to be compatible with a variety of automation options to allow labs the flexibility to personalize their setup to meet their specific needs. To help you make the best decisions for your own lab, here are the answers to some...
Tips to maximize electrode lifetime for Echo MS system by Mackenzie Pearson | Biopharma, Data acquisition, Echo MS, Environmental / Industrial, Food / Beverage, Instrument maintenance, Life Science Research, Pharma, SCIEX information, TechnologyWhile it’s easy to think of the Echo® MS system as an ultrafast LC system in front of the SCIEX Triple Quad 6500+ mass spectrometer, the system operates on fundamentally different principles. For this reason, it requires different routine maintenance to keep it...
Clustering algorithms in MarkerView App by Christie Hunter | Data Visualization, Life Science Research, Multi-Omics, OneOmics, Proteomics, SCIEX informationFinding interesting and significant changes across a biological dataset can be challenging, so having good algorithms that can mine large datasets for differences, and find the statistically significant changes is really important. Within the MarkerView App we have...
How do I define the experimental design (the metadata) for my SWATH acquisition study within the OneOmics suite? What are the requirement for replicates? by Christie Hunter | Data processing, Life Science Research, Metabolomics, OneOmics, Proteomics, QTOF, SCIEX information, ZenoTOF 7600 systemIn quantitative Omics research, the goal is to understand which analytes (protein or metabolite) are perturbed between experimental conditions; therefore we carefully design our studies to explore these questions. The algorithms used within the Assembler application...
What is the Most likely ratio normalization strategy? by Christie Hunter | Algorithms, Life Science Research, MarkerView, Metabolomics, OneOmics, Proteomics, QTOF, SCIEX information, ZenoTOF 7600 systemWhen performing LC-MS quantitation, there are numerous sources of experimental variance that can confound the quality of your results (variation in the starting amount of sample, variation in the LC-MS measurements, etc.). Having a robust normalization strategy that...
Understanding MS1 Peak Intensity in ProteinPilot software by Christie Hunter | Data processing, Life Science Research, ProteinPilot, Proteomics, QTOF, SCIEX information, ZenoTOF 7600 systemThe “Intensity (Peptide)” values come from LCMSReconstruct, in ProteinPilot software 5.0. It maps the RT, m/z, intensity MS1 surface to find the peak information for the peptide. The Intensity (Peptide) is a weighted sum of the heights of the isotope series at the...
What is the difference between a rapid and a thorough search in ProteinPilot software? by Christie Hunter | Data processing, Life Science Research, ProteinPilot, Proteomics, QTOF, SCIEX information, ZenoTOF 7600 systemWhen setting up your search in ProteinPilot software, you select either a Rapid Search or a Thorough Search in the Search Effort section. This setting determines which parts of the algorithm will be invoked and effectively how deep into your sample you will search to...
What are my normalization options in MarkerView software and when should I use them? by Christie Hunter | Algorithms, Data processing, MarkerView, SCIEX information, TechnologyIn an LC-MS experiment there are multiple sources of variance that can confound the quality of your results. This variation can be biological e.g. differences between treated and control groups, but can also be non-biological, usually from small variations in...
Computing protein confidence with improved accuracy by reassessing peptide confidence during protein grouping by Christie Hunter | Data processing, Life Science Research, ProteinPilot, Proteomics, QTOF, SCIEX information, ZenoTOF 7600 systemProteinPilot software 4.0 and higher releases include a new method for calculating protein confidences that improves reliability at the end of protein lists. Figure 1 shows a simulated example that demonstrates how more accurate protein confidence is computed. Figure...
Breaking down the SCIEX Triple Quad™ 7500 LC-MS/MS System – QTRAP® Ready by Jianru Stahl-Zeng | Blogs, ClinicalSensitivity and robustness carry different meanings in the world of mass spectrometry. Generally, sensitivity refers to an instrument’s ability to achieve lower limits of detection (LOD). Robustness, on the other hand, refers to an instrument’s ability to consistently...
A rising star in food allergen research: proteomics of shellfish allergen by SCIEX Community | Blogs, Food / Beverage, Life Science Research, ProteomicsIt’s important to know what you’re eating, especially if you suffer from a food allergy. About 220 million people worldwide live with a food allergy.1 These numbers, along with the complexity and severity of conditions, continue to rise. In America, there are about 32 million food allergy sufferers—5.6 million of those are children under the age of 18.2.2 That’s 1 out of every 13 children, or about 2 in every classroom. From a financial perspective, the cost of food allergy childcare for US families is up to $25 billion
“Bottoms Up” Proteomics by Tom Knapman | Blogs, Life Science Research, Proteomics Ahhhh beer. It's a ubiquitous drink found in over 90% of all countries around the world. Since the dawn of civilization, man has celebrated with beer where it can make even the most introverted person suddenly dance a little jig or belt out a top 40 song. But other...
The Ultimate Selectivity for Peptide and Protein Quantitation by SCIEX Community | Biopharma, Blogs, Life Science Research, Proteomics, Technology There’s no doubt about it, biopharma drug development is experiencing phenomenal growth and presents a variety of challenges not experienced in small molecule development. Some of these challenges are in the selective and sensitive quantitation of peptides and...
Multi-Laboratory Study Highlights the Quantitative Reproducibility of SWATH Acquisition (Nature Communications Paper) by Christie Hunter | Blogs, Life Science Research, ProteomicsReproducibility is one of the key tenets of the scientific method. But in a recent survey published in Nature, more than 70% of researchers were not able to reproduce another scientist’s experiments, and more than half could not reproduce their own experiments1. While the reasons for this are many, at least some of them stem from issues inherent in data collection.
SCIEX Lands HUPO Science and Technology Award by Tom Knapman | Blogs, Life Science Research, ProteomicsWe are pleased to congratulate its research scientists Stephen Tate and Ron Bonner (retired) for being awarded this year’s Science and Technology award at HUPO 2017 in Dublin Ireland. The Science and Technology Award at HUPO recognizes an individual or team who were key in the commercialization of a technology, product, or procedure that advances proteomics research
Happy Birthday to SWATH Acquisition! 5 Years of Innovation by Christie Hunter | Blogs, Life Science Research, ProteomicsWith its introduction at the HUPO World Congress in 2010 in Sydney Australia by Ruedi Aebersold, SWATH® Acquisition instantly intrigued scientists around the world. Here was a new technique with the potential to revolutionize the way proteomics studies were performed! Based on a data independent acquisition strategy using a SCIEX TripleTOF® 5600 system, SWATH was able to consistently identify and quantify at least as many peptides and proteins as other far more mature proteomics strategies on the market, but with quantitative accuracy and reproducibility rivaling gold standard MRM experiments! This solution was made broadly available to researchers with a full launch of SWATH Acquisition in the Analyst® TF 1.6 Software on the TripleTOF 5600+ System at ASMS 2012 in Vancouver (A Mine of Quantitative Proteomic Information. Prof Dr. Ruedi Aebersold, Head of the Department of Biology, ETH Zurich).
5 Tips for Calibrating a QTOF Mass Spectrometer by SCIEX Community | Blogs, Life Science Research, Proteomics, TechnologyDo you have questions about your mass spec? How about a workflow? Our community members are involved in active discussions and receive expert answers from customers like you, SCIEX scientists, and support specialists every week. One recent topic concerned the automatic calibration on TripleTOF® systems as answered by Dr. Christie Hunter whose focus is developing and testing innovative MS workflows for omics research through working collaboratively with the instrument, chemistry, and software research groups.