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An overview: LC-MS analysis of targeted protein degraders and their metabolites
Targeted protein degraders (TPD) are a relatively new therapeutic modality that opens the potential to target disease-causing proteins. These disease-causing proteins have been highly challenging for traditional small-molecule therapeutics to treat, making TPDs an exciting new therapeutic modality.
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.
Processing ZenoTOF 7600 system data with DIA-NN software
DIA-NN software is a powerful software tool for processing data independent acquisition (DIA) proteomics datasets. It uses neural networks and other algorithms to identify and quantify peptides and proteins from DIA data and is specifically optimized for fast...
Meat vs plant based. What is the best option?
As we become more conscious about the planet, healthier lifestyles and our duty to protect the environment, attitudes and behaviours are shifting when it comes to food consumption.
How is the protein level fold-change computed on proteomics data using Assembler app?
With bottom-up proteomics, we quantify peptides in the sample and then infer the protein level quantitation from that data. However, due to post-translational modifications, different protein isoforms, etc. we don’t always expect that all peptides associated with the...
Computing protein confidence with improved accuracy by reassessing peptide confidence during protein grouping
ProteinPilot 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...
Intabio acquisition expands SCIEX portfolio of impactful solutions to accelerate biotherapeutic development
Due to the nature of their production, biotherapeutics are difficult to manufacture. Growth conditions, purification protocols and formulation requirements can introduce unintended modifications into the protein structure that may affect its efficacy and safety.
Breaking down the SCIEX Triple Quad™ 7500 LC-MS/MS System – QTRAP® Ready
Sensitivity 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...
The honey sting
As a consumer it’s hard for me not to feel inundated with claims that our food is “all-natural” or “chemical-free” or that we should buy certain “superfoods” for their health benefits. We read labels and trust that the product we are buying is what we are truly...
Innovation that’s blasting through limitations in explosive detection
Mass spectrometry’s important role in identifying explosives The need for rapid explosive detection is now an unfortunate reality. The remit is multifaceted. The first is for preventative purposes, to protect us from any threat to life. The second is in the...
Phthalates Are Out, Accurate Detection Using LC-MS/MS Technology Is In
Whether you like it or not, the plastics industry is a growing market. According to an Allied Market Research report, it was valued at $15,179 million in 2015 and is projected to reach $18,538 million by 2022, growing at a CAGR of 2.9% from 2016 to 20221. Additionally, according to the report, in 2015, phthalates type held two-thirds of the global market in 2015. An important statistic since the use of various phthalates is restricted in many countries because of health concerns2.
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
Forensics Made Easy
Mass spectrometry techniques are now commonplace for high throughput quantitation and screening, but also for research and discovery for food safety, forensics, environmental testing, and a host of other applications. The demands of these settings are different from traditional research, requiring MS systems which combine robust and reliable operation with straightforward day-to-day processing. The SCIEX X500R QTOF System has been developed specifically to meet these needs and is now helping to streamline the workflow of Zurich’s Institute of Forensic Medicine.
3 Workflows Designed to Accelerate Your Biologics Characterization
Biopharmaceutical development is booming and now an integral part of many pharmaceutical company pipelines. While these emerging biologics present exciting opportunities for the industry, their sophistication is challenging the limits of characterization at all stages of discovery and development.
Making Your Vitamin D Testing Dreams Come True
If you work in clinical diagnostics, you can probably confirm that most clinical laboratories have seen a 5 to 6-fold increase in 25-hydroxyvitamin D testing over the past decade, and volume is growing. Furthermore, the Office of Inspector General (OIG) recently reported Vitamin D as one of the top five laboratory assays reimbursed by Medicare, accounting for 8.7 million laboratory tests and $337 million in reimbursement dollars.
The Science Behind SelexION Differential Mobility Spectrometry Technology
Scientists and analysts across all fields of testing and research are increasingly challenged by complex samples requiring advanced analytical selectivity. And where LC-MS/MS sensitivity alone is not enough to meet the demands of modern day quantitative performance, Differential Ion Mobility Spectrometry (DMS) has proven to be a valuable addition.
Elimination of Interference using the SelexION Differential Mobility System for the Quantitation of Rituximab in a Dual Surrogate Peptide Approach
The quantitation of proteins using the surrogate peptide approach can complicate nominal mass Triple Quadrupole MRM measurements due to co-extracted interference when using non-selective extraction techniques such as pellet digestion. High resolution coupled with accurate mass filtering can mitigate such interference, as reported previously for the determination of rituximab using the TripleTOF 6600 (Protein Quant Approaches). However, an additional level of selectivity can often be achieved on nominal mass systems using the orthogonal gas-phase separation approach offered by the SelexION+® Differential Mobility System technology (DMS). Interfaced between the sampling orifice and ion source, the DMS separates ions based upon differences in their migration rates under alternating low and high field waveform amplitudes (Figure 1). Ion clustering in low fields and declustering in high fields amplifies the distinction in mobility of an ion, resulting in improved resolution from interfering species of differing molecular cross-section.1-4
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.
Enhancing In Vitro ADME Screening
LC-MS technology is helping contract research organization Cyprotex Discovery Ltd. perform bioanalysis of small molecules, peptides, and other pharmaceuticals, enabling quantification to be performed in complex matrices during in vitro ADME studies.
Host Cell Protein Analysis – Mass Spec’s Edge Over ELISA
The number of protein based drugs coming onto the market is at an all-time high, particularly those produced with a host cell system. With host cells come their own proteins. These host cell proteins (HCPs) constitute a major part of process-related impurities and can adversely affect drug safety, so it is critical that they are identified and quantified accurately.
Fipronil Tainted Eggs Detected in Several European Countries
News agencies all over the world are reporting a new food contamination issue regarding eggs which have been found to contain residues of Fipronil. According to Nieuwsuur, a Dutch news, and current affairs program, “The Fipronil scandal is a huge blow to the poultry sector. Millions of eggs are destroyed and 138 companies remain tentatively closed. But supermarkets also face great damage. In recent days all contaminated eggs have been taken out of the shelves.” CBS news has reported that contaminated eggs have been discovered in Belgium and in the Netherlands with other European countries now on alert.
In Search of the Unknown
The production of high-quality drinking water entails rigorous treatment and testing procedures. For water suppliers’ laboratories, such as the Zweckverband Landeswasserversorgung in Germany, one of the major challenges is the identification of trace levels of organic substances, which can be achieved with the help of mass spectrometry.
A Fleet of Analyzers Keeps Work Flowing
An Interview with Timothy Sangster, Head of Bioanalysis and Immunology, Charles River Laboratories, Edinburgh
Designed Specifically for Your Clinical Lab—Mass Spec Made Simple
Welcome to the first post in our clinical diagnostic blog series. Our ambition is to become your single destination for everything mass spec in the clinical diagnostic lab. To make this blog as useful as possible for you, we invite you to tell us what topics you would like us to cover. Please comment on this blog below and let us know what you’d like to hear!
Is Your Lab Prepared for Testing? The Global Supplement Market is Growing
Don’t judge a nutritional supplement by its label, as often, government monitoring of ingredients begins after the product enters the consumer market1. Meanwhile, there may be additional additives not mentioned on the label as they are used to address supplement side effects. Such is the case in the United States where even though federal law requires supplements to carry a dietary supplement label or a substitutional term, monitoring begins once a supplement is on the market. In China meanwhile, the China Food and Drug Administration’s (CFDA) health product potential illegal additives list, clearly stipulates monitoring processes for additives in six different types of nutritional supplements including weight loss, blood sugar reduction, blood pressure reduction, anti-fatigue, sleep improvement and immune strengthening functions.Read Tech Note >
How to Detect Additives in Cosmetics Amongst Ever Changing Regulations
In today’s technical blog, I’m talking about the cosmetics industry so let’s get right to it. According to a Research and Market report, “The Global Cosmetic market was $460 billion USD in 2014 and is estimated to reach 675 billion USD by 2020, growing at a rate of 6.4%.”1 The U.S. leads the pack with a reported $62 billion in revenue earned in 20162. So, what am I getting at? We know earnings are strong and consumers like their products. But the question remains, are these products that you put on your skin, hair, and ingest safe? Such is the thinking of scientists like me and other chemists who are routinely tasked with detecting minimal levels of potentially harmful ingredients in personal care products against ever-changing global regulations.
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.
Delivering New Biologics to the Marketplace
Characterization and quantification of host cell proteins (HCPs) in biopharmaceutical development and manufacturing is a critical step to ensuring product safety. While this can be achieved using ELISA, mass spectrometry using the SCIEX TripleTOF® 6600 System is more specific and enables the identification and quantitation of each of the individual proteins present.
Speeding the Development of Quantitative Biosimilar Assays
When developing new quantitative assays for Biotherapeutics, every biologic requires a specific sample prep strategy, which includes sourcing reagents and research protocols. However, as every bioanalytical lab knows all too well, it can also take up to two months to develop an optimized and robust LC-MS assay. For this reason, researchers understandably want an easier way to develop highly sensitive and specific assays for biotherapeutics and biosimilars to accelerate sample turnaround time.