In 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...
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Guide decisions during cell line development with more information at the intact level
Monitoring product quality attributes (PQAs) throughout monoclonal antibody (mAb) development is vital to ensuring drug safety and efficacy. By adopting orthogonal analytical techniques and integrating new technologies that have the potential to provide more information, it is possible to improve product quality and manufacturing efficiency and make more informed decisions.
Metabolite identification and peace of mind
Managing metabolite identification (Met ID) studies is challenging, so what is at the top of your priority list as you plan the year ahead? Ensuring you have the data needed to manage product safety, meeting deadlines, staff recruitment and training, maintaining compliance, capital expenses, or something else?
What has the Echo® MS system done for the pharma industry? (And don’t just take our word for it!)
SCIEX was very proud to have an illustration of the Acoustic Ejection Mass Spectrometry (AEMS) technology that powers the Echo® MS system on the front cover of the Journal of the American Society for Mass Spectrometry in January 2023. The associated article—Ultrahigh-Throughput Intact Protein Analysis with Acoustic Ejection Mass Spectrometry—was co-authored by scientists from SCIEX and Merck.
New features in OneOmics suite
I just wanted to thank the readers here, both the OneOmics suite users who’ve shared their time and watched OneOmics grow, and for all the talented developers and scientists who’ve made OneOmics suite what it is today.
Uploading data for use in OneOmics suite
There are two options for data storage when working with the OneOmics suite. You can store your data either within the SCIEX Cloud platform in the Data Store, or you can store data in BaseSpace (Illumina) and link your BaseSpace account with the SCIEX Cloud platform....
Stay informed on the latest novel psychoactive substances (NPS) flooding the US drug market
Each year, the Drug Enforcement Administration (DEA) Special Testing and Research Laboratory publishes an Emerging Threat Report. The data contained in the report is updated quarterly and represents a snapshot of the drug evidence seized and analyzed by the DEA in the...
What is the difference between MRM3 vs MS/MS/MS (MS3)?
The MRM3 workflow and the MS3 scan are functionally the same QTRAP system scan, but used with different goals in mind. The main difference is how these scans are used in the whole MS workflow. With MS3 scans, you can use these in a data dependent mode for discovery...
How do I define the experimental design (the metadata) for my SWATH acquisition study within the OneOmics suite? What are the requirement for replicates?
In 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...
Downloading results from SCIEX Data Store or BaseSpace
Once your data processing sessions have completed, the results files are saved back to either SCIEX Data Store or BaseSpace. These can be downloaded from the cloud to your desktop for additional analysis. Please see these community posts to learn more: Explaining the...
Understanding MS1 Peak Intensity in ProteinPilot software
The “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...
Maximize the use of your software. Buy only what you need
The latest releases of Analyst Software 1.7 and SCIEX OS Software 1.4 introduce a new licensing model called concurrent licensing. If you want flexibility and cost savings when purchasing and using your processing software, concurrent licensing is for you. How does...
3 Reasons to Upgrade to Analyst Software 1.7
Would you be surprised to know that the SCIEX QTRAP® and Triple Quad™ mass spectrometry systems are ideally suited to meet the needs of any lab? Even more so as new orders will ship with our flagship Analyst® Software 1.7. The software is the single LC-MS/MS software,...
On Demand Videos from the 2017 Global CESI-MS Symposium
The 2017 Global CESI-MS Symposium brought together KOLs and industry innovators from around the world to share their latest advancements using capillary electrophoresis integrated with electrospray ionization (CESI-MS) within the same device.
Multi-Laboratory Study Highlights the Quantitative Reproducibility of SWATH Acquisition (Nature Communications Paper)
Reproducibility 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
We 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
With 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
Do 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.
Why Microflow HILIC Chromatography for Targeted Metabolomics Applications?
I recently had the opportunity to catch up with Baljit Ubhi to discuss the top questions you’re asking in regards to using Microflow HILIIC Chromatography for Targeted Metabolomics. Here’s what Bal said:
Discover The Benefits of Knowledge Base Articles
Did you know you can access Knowledge Base Articles for trending user questions compiled and answered by SCIEX support experts? Doing so may help to reduce your support calls, not to mention downtime. Instead of waiting for a problem to occur, you can stay on top of it, and be a part of the solution. To give you an idea of trending articles, consider the how this past month saw questions and answers including:
How Easy Is It to Relocate a Mass Spectrometer?
When you’re in the process of moving your lab, across the corridor or to another country, there’s a lot to think about. Adding to the stress, there’s not always a lot of time to plan, or budget allocated for the process, especially in the case of unexpected urgent maintenance work.
SWATH Acquisition – Master of All Trades
SWATH® Acquisition is an innovative strategy for acquiring data on a TripleTOF® mass spectrometer. In a previous blog, we learned how SWATH works. Now let’s learn what it can do for different applications:
Data Independent Acquisition Mass Spectrometry with the Power of SWATH
There are many different methods in use today to acquire data on a mass spectrometer, but few have generated as much buzz in recent years as SWATH technology. First reported 5 years ago by Ruedi Aebersold and his group1, SWATH® Acquisition on a TripleTOF® instrument has rapidly become one of the premier acquisition strategies for identification and quantitation of complex samples. But what exactly is SWATH and why is it so powerful? In order to answer these questions, let’s first take a step back and look at the larger picture.
Vice President Biden Announces Agreement Naming Children’s Medical Research Institute’s ProCan Lab to the ‘Cancer Moonshot’ Initiative
A key goal of the ‘Cancer Moonshot’ initiative is the advancement of precision medicine, with the goal of making more targeted therapies available to more cancer patients. And researchers believe that the time is right, with the new technological innovations, the new insight into the biology of cancer and big improvements in the handling of ‘big data.’
Stoller Biomarker Discovery Centre, Addressing Some of the Biggest Issues in Medicine
The Stoller Biomarker Discovery Center, developed in partnership with SCIEX, was created to develop new omics technologies for biomarker research to understand the root cause of diseases such as cancer, cardiovascular disease, and autoimmune diseases. We initially announced our collaboration with the University of Manchester back in October 2015.
The History of Isotopic Labels for Quantitative Proteomics
Proteomics has become a vital tool for biological scientists performing research on the healthy and diseased states of living things. It involves the large scale and systematic analysis of all proteins within a given cell, tissue, or organism. Because proteins are regulated by many different internal and external stimuli, the proteome is dynamic and quantities of proteins can change from one state to the next. Therefore, in order to be of the highest utility, proteomics experiments need to both identify and quantify proteins so that comparative studies can be done, such as between healthy cells and tumor cells, or the comparison of different treatment regimens.
Taking care of your mass spectrometer—Onsite troubleshooting and maintenance training for today’s lab
Recently, we asked customers to tell us about their biggest challenges so we could customize training programs to meet the needs of today’s growing lab. Without hesitation, most of you said uptime and employee training are your most critical needs. As a result, our...
The Promise of Precision Medicine
Here is the latest update on the Worldwide Efforts to Accelerate Precision Medicine
The NIH recently issued a press release in early July announcing $55 million in awards. According to the release, the $55 million award in the fiscal year 2016 will go towards building the foundational partnerships and infrastructure needed to launch the Cohort Program of President Obama’s Precision Medicine Initiative (PMI). The PMI Cohort Program is a landmark longitudinal research effort that aims to engage 1 million or more U.S. participants to improve the ability to prevent and treat disease based on individual differences in lifestyle, environment, and genetics.
Why Study Lipids?
I had an opportunity to follow up with Steven M Watkins, Ph.D. to talk about the importance of studying lipids in disease. Steve has been working in the lipids field for over 20 years and is one of the foremost experts in lipid biology. Steve founded Lipomics in 2000, an early metabolomics company focused on quantitative lipidomics and had followed that company through a series of changes that led to its involvement in the clinical diagnostic development and global metabolomics. Steve authored over 70 peer-reviewed publications including several book chapters on lipids and lipid metabolism. His presentations on this topic are fascinating and very informative, so I wanted to capture some of his thinking here!
Improved complex sample processing for higher quality of results, reproducibility and depth of proteomic analysis
SCIEX partners to improve depth of proteome coverage
SCIEX and Pressure BioSciences address a major challenge for researchers performing complex sample preparation by marketing a complete solution to increase the depth, breadth, and reproducibility of protein extraction, digestion, and quantitation in all tissue types, especially challenging samples like tumors.
Industrialize Your Quantitative Proteomics Using a More Simplified Sample Prep
in part 1 and part 2 of this blog series we discussed how you can increase your efficiency for high throughput quantitative proteomics by industrializing your sample analysis and data processing. Microflow SWATH® Acquisition on your TripleTOF® system coupled with OneOmics™ data analysis tools allow you to run samples faster, collect data faster, and process your data files faster. It all adds up to getting more meaningful biological information in a shorter amount of time.