PRIME
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prime The multidimensional path to the Proteome Innovation with Integrity Mass Spectrometry

Reach for the Full Potential of Proteomics. Open Your Eyes to PRIME The Proteome is far more complex than was ever expected at the genesis of the Proteomics revolution. Dynamics in time, space and concentration as well as variability due to modifications and mutations require novel and complementary approaches to generate useful, reliable and complete information. There is no „one size fits all“ in unraveling the Proteome. PRIME delivers a multidimensional toolbox to unlock the complexity. Bruker’s PRIME solution (Protemics through Integrated MALDI and ESI) leads the way to integrated...

Bottom-up Protein Identification Bruker‘s Next-generation MS technologies enable greater proteome coverage in Bottom-up proteome analyses PRIME: Taking advantage of ESI / MALDI complementarity ESI and MALDI represent complementary ionizations. In the shot-gun analysis of the human cell line, a 20% higher number of confidently identified proteins was achieved by combining ESI and MALDI data. This just takes three mouse clicks in the ProteinScape software. Any Bruker ESI or MALDI mass spectrometer is able to provide a new level of performance for complex proteomic samples, i.e. to identify >...

Top-down Protein Characterization Top-down protein analysis complements post-translational modifications (PTM). Bottom-up data and generates most valuable knowledge about full protein details like sequence, splicing or proteolytic processing variants and spectra even have "true de-novo" protein sequencing quality. PRIME combines various instruments to get the full De-novo MALDI Top-down sequencing of an intact 13.6 kDa Camelid antibody yields full sequence coverage. c |TVTQ7G ILt-R + LISIC AASO-l-t-l-t-FHSH-tN AMG-W-t-Y-t-R4QI OK t E1-R + E t L IV AAHH SI SI N SNITH- I- Y- AID SIVtK G...

The maXis UHR-QTOF is the ideal platform for the analysis of intact proteins, regardless of their size. Small and medium sized proteins can be measured with full isotopic resolution. Analysis of larger proteins, such as antibodies, reveals fine structures in the Maximum Entropy deconvoluted spectra, which can be attributed to glycosylation of the antibody (see Figure below). LC/MS intact protein analysis of an e. coli cell lysate. Mass resolution at the protein mass 36 kDa is R= 65,000. The versatility of amaZon ion trap instruments makes them ideally suited to intact protein sequence...

Post-translational Modifications The function of many proteins is modulated by reversible PTMs. Labile PTM‘s like phosphorylations or glycosylations are cleaved off during conventional CID impeding the unambiguous assignment of the modification site. Since it preserves the PTM bond to the peptide backbone, ETD has become the method of choice for the analysis of labile PTMs. Its specific fragmentation pattern makes it an instrument of choice for the detection of other modifications like iso Asp which can‘t be adressed with CID. With its most sensitive, robust and reliable ETD technology the...

Post-translational Modifications: Glycosylation Glycoproteomics finally unraveled - fully integrated workflow in ProteinScape Protein glycosylation is the most challenging PTM in proteomics studies, due to its complexity and lack of dedicated post-processing tools. Bruker`s ProteinScape software now enables the detection, classification and identification of glycopeptides. The peptide moiety is identified by the usual protein DB search. In addition, ProteinScape’s novel proprietary GlycoQuestTM glycan DB search engine retrieves the glycan structure. The result is a complete glycopeptide...

MALDI Molecular Tissue Imaging The spatially resolved molecular view into biology and disease MALDI Imaging has emerged as a fully loaded proteomic tool. Determination of protein expression directly on cancer tissue, e.g., can reveal significant markers and lead to new insight into biological processes. Bruker‘s PRIME solution provides biomarker discovery and identification in an integrated Topdown proteomic strategy. Starting with tissue screening by MALDI, statistical tools pull out differential proteins. These are identified by ETD/PTR approaches in the amaZon ion trap. The workflow...

Bioinformatics: ProteinScape The bioinformatics tool pulling together all your data to unravel the complexity of the proteome State-of-the-art MS instruments acquire large amounts of data at tremendous speed. To keep pace in data analysis, advanced software tools are required. ProteinScape´s intuitive user interface provides access to any detail of proteomic datasets (separation, protein and peptide IDs, MS and MS/MS spectra) by a single mouse click. Projects can be structured to precisely reflect the analytical workflows applied in the lab. In PRIME, ProteinScape, Bruker‘s market-leading...

• Bioinformatics: ProteinScape Turning proteomics data into biological information ProteinScape connects to web resources for higher order information such as 3D structures of identified proteins. Identified peptides and modifications can be mapped to the protein structure (in the figure below phosphorylation biological processes.

Quantification with label and label-free strategies Identification and quantification of protein expression is key for the understanding of biological processes and for the discovery of biomarkers. ProteinScape offers full support for label (SILAC, iTRAQ, ICPL, etc.) or label-free approaches in a seamless fashion. Advanced visualization and validation tools are accessible through an easy-to-use interface, allowing straightforward extraction of essential information from quantitative proteomic studies. Colon tissue ProteinScape supports PRIME: Interaction between identification and...

PRIME Proteomics through Integrated MALDI and ESI A multi-tier approach to decipher biology and disease, and to turn proteome data into knowledge: maxis impact, maxis 4G UHR-QTOF Ultimate combination of high resolution, mass accuracy, speed and senstivity Unlimited m/z for Top-down analysis of intact proteins and non-covalent protein complexes autoflex speed, ultrafleXtreme MALDI-TOF/TOF Bottom-up LC-MALDI with high dynamic range and no time contraints Top-down analysis of proteins Glycopeptide classification and complete structure elucidation MALDI Molecular Imaging on tissue amaZon ion...