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New Technique to Revolutionize Proteomics Mass Spectrometry

SCIEX
5 Jun 2011
bridget bridget
Laboratory Director

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Scientists at ETH Zurich and AB SCIEX are working together to deliver the first mass spectrometry-based technique that will allow quantitation of every peptide in a single proteomics sample analysis. SWATH™ Acquisition is a breakthrough for proteomics mass spectrometry users to conduct simultaneous quantitative and qualitative detection of all proteins and peptides in a single analysis. Details about SWATH™ Acquisition will be presented this week at the American Society of Mass Spectrometry (ASMS) conference in Denver.

AB SCIEX is developing enhanced MS/MSALL functionality to enable SWATH™ Acquisition on the AB SCIEX TripleTOF™ 5600 System as part of the MRMAtlas collaboration with Dr. Ruedi Aebersold and his team at ETH Zurich. Existing high resolution and orbital trapping mass spectrometry systems can only qualitatively detect a subset of proteins in complex samples due to their relatively slow speed of MS/MS acquisition, and samples are often re-analysed on additional instruments for better quantitation. The technique is expected to generate exciting proteomics discoveries and overcome the diminishing scientific returns of iterations on current mass spectrometry platforms.

SWATH™ Acquisition provides a complete quantitative and qualitative archive of the sample, which can be retrospectively interrogated in silico as new hypotheses are developed. This new technique is a perfect complement to the MRMAtlas, which is a database that provides mass spectrometry-based assays to a large proportion of the human proteome.

The active collaboration with Dr. Aebersold and his team will continue to develop the software processing approach to interpret the data based on the MRMAtlas. SWATH™ Acquisition, which is an extension of AB SCIEX’s MS/MSALL technology, can only be done on the TripleTOF™ 5600 due to its unique combination of ultra-high acquisition speed with quantitative capabilities, accurate mass and high resolution. MS/MSALL has previously been used successfully in infusion methods for the quantitation and characterization of lipid species. Now, expanding on this capability, MS/MSALL using SWATH™ Acquisition gives a vast increase in duty cycle to enhance coupling with LC/MS – a significant advancement in mass spectrometry technology.

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Mass SpectrometryMass spectrometry (MS) is a powerful analytical technique used to identify and quantify molecules based on the mass-to-charge ratio of gas-phase ions. It provides detailed information about the structure, composition, and properties of compounds and is widely used across fields such as environmental monitoring, materials science, drug discovery and development, food and beverage testing, and wider chemical research. Key MS techniques include tandem mass spectrometry (MS/MS), liquid chromatography–mass spectrometry (LS-MS) and inductively coupled plasma (ICP-MS). Choosing from these wide range of techniques and technologies can be a daunting task, so keep up to date with scientific applications, performance expectations, and customer reviews here all in one place. Visit our product directory to receive quotes direct from the manufacturer. Genome AnalysisGenomics, the study of genomes, includes functional genomics, evolutionary genomics and comparative genomics. There are many genomic technologies such as DNA sequencing of whole genomes, computational biology and bioinformatics. DNA and nucleic acids must be isolated and concentrated from cells for analysis with kits, automated analyzers and software. Other useful technologies for studying genomics include PCR, microarrays and electrophoresis.ProteomicsProteomics is the systemic bioinformatics study of proteins and amino acids, including their structure, size, function and identification. Tools used in proteomics include chromatography, blotting and gels, protein arrays, mass spectrometry and ELISA and associated analysis software. Analyzers and proteomic systems should be sensitive, high resolution, fast and may be automated for high-throughput.High-Throughput ScreeningHigh-throughput screening (HTS) is an automated drug discovery technique for identification of active compounds against a compound library. Use HTS readers and integrated assay preparation / analysis workstations to screen your compounds. Identify active compounds against various HTS libraries, including membranes, proteins and peptides and HTS cell lines. Find the best high-throughput screening products in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Assay AssemblyAssay Assembly is technique used in drug discovery to develop assays to test the cytotoxicity, genotoxicity, or other activities of a compound on a cell. Assay assembly requires chip assembly, a delivery system and a detection and analysis method. Beneficial features of assay kits or automated systems include high-throughput, high speed and sensitivity and low signal to noise ratio.High-Content ScreeningHigh-content screening (HCS), also known as high-content analysis (HCA), is a high-throughput technique used in drug discovery to identify substances that alter the phenotype of cells. HCS uses fluorescent microscopic imaging and automated image analysis to investigate cellular events such as apoptosis, cell viability, GPCR activation, oxide production, neurite outgrowth, and cell signaling. Find the best fluorescent labeling reagents, cellular assays, and high-content imaging systems in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Protein PurificationProtein purification is a vital step in drug discovery, therapeutics, biotech and life science research. The purification process typically involves subcellular or membrane protein extraction with cell lysis kits, separation of proteins from cell debris by filtration or spin columns, and the isolation of proteins of interest from other proteins and impurities with affinity purification (including fusion protein tags and antibody binding proteins A, G and L), immunoprecipitation or chromatographic methods, such as ion exchange, size exclusion and immobilized metal affinity chromatography. All purification methods come in multiple formats for your laboratory needs, including agarose or magnetic beads, resins, columns and filter plates. Find the best protein purification equipment in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Clinical TrialsClinical Trials, an essential part of drug discovery process, assess the safety and effectiveness of a new medication or device in the pharmaceutical industry. Clinical Trials are a phased process (Phase 0, Phase I, Phase II, Phase III and Phase IV) which begins after initial preclinical testing.

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