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A rising star in food allergen research: proteomics of shellfish allergen

It’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

You’ve Edited the Gene. Now What?

Protein-Level Verification Without The Need For Antibodies Using SWATH® Acquisition. Fast, Comprehensive, and Highly Reproducible Although humans have been able to influence the traits of plants and animals for thousands of years through domestication and selective...

A Smart Way to Profit from the Wealth of Biobanks

  Microflow LC with SWATH® Acquisition for Digitizing Biobanks What if you could access thousands of high-quality samples for your research? What if these samples were well-annotated biological specimens? And what if they were carefully segmented into just the...

A rising star in food allergen research: proteomics of shellfish allergen

A rising star in food allergen research: proteomics of shellfish allergen

It’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

Multi-Laboratory Study Highlights the Quantitative Reproducibility of SWATH Acquisition (Nature Communications Paper)

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.

Happy Birthday to SWATH Acquisition! 5 Years of Innovation

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

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.

A Mine of Quantitative Proteomic Information

A Mine of Quantitative Proteomic Information

The Aebersold group at ETH Zurich focuses on proteomics research, including the development of techniques to study the proteome as an integrated entity. In collaboration with SCIEX, the group established SWATH® Acquisition mass spectrometry, a data-independent acquisition (DIA) method capable of fragmenting multiple peptide species concurrently. The resulting comprehensive data set can be retrospectively re-mined, enabling maximum benefit to be derived from any study.

Data Independent Acquisition Mass Spectrometry with the Power of SWATH

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.

The World Has its Eyes on Precision Medicine

The World Has its Eyes on Precision Medicine

What if we could understand and then treat diseases on an individualized level, in a way that was tuned to a person’s individual biology? Not in a futuristic, ‘wave a high-tech scanner across a person’s body’ way, but in a legitimate ’I can run a lab test and know the best action to take’ way. This is the promise of Precision Medicine, to deliver the right treatment to the right patient, at the right time, predicting more accurately which treatments will work for certain groups of patients, in contrast to the pervasive one-size-fits-all approach. More specifically, if we could provide a comprehensive report at the molecular level of an individual (based on genome, proteome, or metabolome profiles), a physician could be much better informed to make optimal treatment decisions. And if we could track these profiles over time, a person could adjust their lifestyle to focus on long-term wellness.

Keep your system running at optimal performance with the SWATH acquisition performance kit

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

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

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

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.

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.

Improved complex sample processing for higher quality of results, reproducibility and depth of proteomic analysis

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 with the OneOmics Project

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.

Industrialize Your Quantitative Proteomics with the OneOmics Project

Industrialize Your Quantitative Proteomics with Microflow Analysis

Many groups around the world are now using SWATH Acquisition on TripleTOF Systems for both quantitative proteomics experiments and biomarker research. The SWATH acquisition technique on a TripleTOF® 6600 system provides state-of-the-art quantitative proteomics analysis with unrivaled proteome coverage. With this workflow, researchers can routinely quantify 1000s of proteins per run, reproducibly, and with high data completeness – all with the quantitative accuracy approaching that of a gold standard MRM approach.

Use a Bigger SWATH Library and Get More Protein Coverage From Your Sample

Use a Bigger SWATH Library and Get More Protein Coverage From Your Sample

If you have a TripleTOF® System and you’re using SWATH Acquisition for your quantitative proteomics experiments, you’ve made the right choice. SWATH is a data independent workflow that enables data to be acquired for every detectable analyte in a complex sample. You create a digital map of the sample that can be mined for new information any time new biological insights are hypothesized. It’s all there!