This excel sheet allows you to quickly estimate the MRM concurrency and approximate dwell time for your Scheduled MRM Algorithm acquisition method. Paste your MRM method with retention times into the input tab then calculate the Excel workbook. Plots will update to...
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Questions and answers to help improve your mycotoxin analysis
During a recent webinar I shared method details for mycotoxin analysis on the SCIEX 7500 system. In this blog i will share the Q&A for the submitted questions that we did not have chance to answer during the live webinar.
Relative migration time
How do I set up my processing method to calculate the RRT of the main peak to 10kD in karat 32 software?
Assess the performance of the Echo® MS system
To obtain the best, most reproducible results using the Echo MS system, it is important to select the best solvent for your analyte and matrix and to ensure the flow rate is optimized for your solvent. Please review this flow rate optimization community post to...
Back to the new basics: Part 1 | Making the leap from GC-MS to LC-MS
Producing accurate results quickly in a demanding environment is no easy feat for analytical scientists. What’s more, many of us are constantly questioning ourselves—I certainly am—about whether we are employing the best technique for the analysis at hand.
It’s an overwhelming thought, considering the wide range of tools that are available to choose from, each of which offers varying levels of capacity, sensitivity, selectivity, specificity and cost. How do you meet the unique needs of your organization without breaking the bank? I get it, and I’m not here to convince you it’s easy. My aim is to guide you through the process to help you make the right decision for you.
Switching between different LCs that communicate through ethernet and setting up the correct module IP address
Different LC options are supported in SCIEX OS software and Analyst software. Those that communicate through ethernet differ in their default IP addresses. In this community post, we will detail the LAN setup, configuring the IP address and subnet mask for LC...
MRM method transfer from a SCIEX Triple Quad or QTRAP 6500+ system to the SCIEX 7500 system
General recommendations when beginning method development Objective: The purpose of this document is to provide a quick reference for transferring MRM-based quantification methods from a SCIEX Triple Quad or QTRAP 6500+ system to a SCIEX 7500 system. While the best...
Identifying the unknown PFAS profile in firefighting foams/AFFF
According to a recent study from Harvard University, the US EPA, and NIEHS, traditional targeted analysis techniques poorly characterize the PFAS composition of contemporary PFAS-based firefighting foams, know as aqueous film-forming foams (AFFF). Using the EPA 533 PFAS drinking water method for the analyte list, the researchers found that targeted mass spectrometry methods accounted for <1% of organic fluorine content. This is important because it demonstrates that targeted analysis methods miss nearly all the PFAS compounds in modern AFFF mixtures, thus underestimating the risk to human health and the environment.
High level method optimization considerations for Echo MS system
While an in-depth discussion of method development and optimization for the Echo® MS system is beyond the scope of a community post, here are some points to consider as part of the process: The maximum recommended ion spray voltage for prolonged electrode life is 5000...
sMRM Concurrency Calculator
This excel sheet allows you to quickly estimate the MRM concurrency and approximate dwell time for your Scheduled MRM Algorithm acquisition method. Paste your MRM method with retention times into the input tab then calculate the Excel workbook. Plots will update to...
Controlling the M5 MicroLC system with SCIEX OS software using contact closure
Contact closure can be used to control external devices that are not directly controlled by SCIEX OS software. A sample batch is first created in the SCIEX OS software for MS acquisition, and then a similar batch is created on an external LC device with the required...
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.
Keep your system running at optimal performance with the SWATH acquisition performance kit
Standards, Protocols, and Templates for Generating your Best Quantitative Proteomics Data
If you are just starting out as a proteomics researcher using mass spectrometry, the workflow can seem particularly daunting. How do you know if your system is set up correctly? How do you know if you are getting the best data possible? And if you are a seasoned proteomics researcher, how do you know if your system is still running at peak performance from one study to the next?
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.
Industrialize Your Quantitative Proteomics with the OneOmics Project
For many labs, the days are long gone when it was acceptable to run only a few samples a week for your quantitative proteomics projects. The pressure for faster turn-around times, to support larger cohort studies, to sustain multiple research directions, and to transition from a purely unbiased discovery mode to verifying something truly unique and interesting, all demand a faster pace. Many labs are now being asked to analyze a hundred samples a week or more. In part 1 of this blog series, we saw how moving to a microflow SWATH workflow can dramatically increase your throughput with little compromise on overall results. In this part, we’ll address what to do with all of this data because it’s just no good if all we’ve done is move the bottleneck downstream.
Taking on Precision Medicine with Industrialized Proteomics
What if we could deliver the right treatment at the right time, to the right person to better, more effectively treat complex disease? This is the promise of precision medicine, to be able to approach complex disease treatment and prevention by taking into account individual variability in genes, environment, and lifestyle for each person.