omation mbers - Society for Laboratory Automation and Screening

omation mbers - Society for Laboratory Automation and Screening omation mbers - Society for Laboratory Automation and Screening

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10:30 am Thursday, February 5 Proteomics – Technology 3 Room B1 Gary Schultz Advion BioSciences, Inc. 30 Brown Road Ithaca, New York 14850 gschultz@advion.com Sample Preparation Tips for Sample Enrichment and Direct Elution Nanoelectrospray Mass Spectrometry Analysis For Enhanced Sensitivity For Protein Characterization 92 Co-Author(s) Geoffrey Rule Sheng Zhang Colleen K. Van Pelt Amie Prince The sample diversity of proteomics requires analytical techniques that can provide rapid and sensitive characterization of complex biological systems. Nanoelectrospray mass spectrometry is one technique essential to every researcher working in this field due to its low sample consumption and sensitivity. NanoESI/MS provides long spray times useful for performing MS/MS including neutral loss and precursor ion scans. Combining NanoESI/MS with sample preparation can further improve sensitivity when sample enrichment or concentration is utilized. The NanoMate 100 with ESI Chip is an automated nanoelectrospray system developed to improve the efficiency and quality of NanoESI/MS. In operation, this system establishes an electric field localized at the exit of each microfabricated nozzle resulting in a stable, robust spray. That combined with the repeatable structure of the nozzles provides an automated platform for analysis of microliter sample volumes. Advantages of the system include low sample consumption, conservation of sample not consumed in the analysis, one-time spray optimization, enhanced spray stability, and no carryover. Sample preparation tips are routinely used for desalting and cleanup of proteins. The NanoMate functionality has been enhanced to enable the direct elution- NanoESI/MS of samples from sorbent-filled pipette tips. Low levels of peptides can be concentrated and enriched. Analytes are eluted in sub-microliter volumes at 100 nL/min delivering high analyte concentrations to the mass spectrometer. Applications of on-line elution will be demonstrated for protein digest analysis and identification of phosphopeptides and glycopeptides. 11:00 am Thursday, February 5 Proteomics – Technology 3 Room B1 Neil Kelleher University of Illinois 600 S. Mathews Avenue Urbana, Illinois 61801 kelleher@scs.uiuc.edu Progress in Automating Top Down Proteomics Co-Author(s) Steven Patrie, Dana Robinson, Yi Du, Lihua Jiang, Michael Roth An emergent “Top Down” approach to analysis of intact proteins will be described. Efforts in our laboratory combine informatics with a Quadrupole/Fourier-Transform hybrid mass spectrometer (Q-FTMS) to enable efficient characterization of biological events that change the mass of protein molecules from that predicted by an annotated genome sequence. A platform dedicated to Top Down is under development and uses a size-dependent proteome fractionation up front, followed by a Q-FTMS engine for data acquisition, and finally a custom database and software suite called “ProSight PTM” for streamlined protein identification and characterization (Anal. Chem., 2003, 75, 4081-4086). Protein examples from yeast and human cells will be described, including characterization of histone modifications using a new database strategy termed “prescriptive annotation”.

11:30 am Thursday, February 5 Proteomics – Technology 3 Room B1 Joseph Loo University of California, Los Angeles 405 Hilgard Avenue, 402 MBI Los Angeles, California 90095 jloo@chem.ucla.edu A View of the Proteome Provided by New Mass Spectrometry Technologies 93 Co-Author(s) Rachel R. Ogorzalek Loo New technologies based on mass spectrometry (MS) and proteomics are being developed to address a number of health-related applications. Parallel approaches that probe complex systems as a unit, rather than one component at a time best allow for the understanding of protein expression per an organism’s developmental state and its response to the environment. An MS-based surface scanning method has been developed in which proteins are desorbed directly from 1D isoelectric focusing gels to create a virtual 2D gel; data are presented as an image, similar to that obtained from a stained 2D gel. Beyond the improved mass accuracy and mass resolution provided by substituting MS for SDS-PAGE, the virtual 2D gel has several advantages over the traditional 2D gel, including high-speed analysis. Small differences between measured and predicted molecular weights can flag contributing post-translational processing and protein modification. ESI-MS for studying noncovalent complexes has utility in chemical biology and biomedical research. ESI has the ability to ionize macromolecules and maintain weak noncovalent interactions. The mass measurement provides a direct determination of the stoichiometry of the binding partners in the complex. In addition to identifying the components that are involved in protein interaction networks, MS studies can identify and elucidate the geometry and interactions of protein machines, such as the 690 kDa proteasome, the protease responsible for protein degradation, and the 14 MDa vault, a ribonucleoprotein particle implicated in multidrug resistance. 1:30 pm Thursday, February 5 Automation Applications in Process R&D Room A2 Norbert Stoll University Rostock R.-Wagner-Str. 31 Rostock, 18119 Germany norbert.stoll@uni-rostock.de Microreactor Systems for Life Science Application Co-Author(s) Arne Allwardt Kerstin Thurow The use of combinatorial methods in chemistry and life science has been developing rapidly within the last years. Since there has been numerous developments in the field of pharmaceutical research in microtiter plate format there is still a lack of suitable instruments for classical. combinatorial chemistry in the mL-range. Synthesis in drug discovery or catalyst screening requires quite often high temperatures and high pressures as reaction condition for hydration, carbonylation or oxidation. The often long reaction times requires parallelization of reactors in order to increase the throughput. Existing instruments are not flexible automated solutions and do not have flexible material and information interfaces. On the other hand they do not always meet the requirements from organic chemists. To fill this gap an integrated automated system for organic high pressure synthesis had to be developed. The presentation will give an overview about existing systems and will show current and future developments in the field of organic high pressure synthesis. Two systems will be demonstrated for reactions in the mL-range (multi parallel reactor array 8/16/24) and for reactions in the MTP-Format (96 / 384). The systems are high temperature/ high pressure designed. Both systems are integrated into an analytical environment to perform a coupling between synthesis and analysis. The 96/384 system can be operated stand alone or by a robot system. PODIUM ABSTRACTS

11:30 am Thursday, February 5 Proteomics – Technology 3 Room B1<br />

Joseph Loo<br />

University of Cali<strong>for</strong>nia, Los Angeles<br />

405 Hilgard Avenue, 402 MBI<br />

Los Angeles, Cali<strong>for</strong>nia 90095<br />

jloo@chem.ucla.edu<br />

A View of the Proteome Provided by New Mass Spectrometry Technologies<br />

93<br />

Co-Author(s)<br />

Rachel R. Ogorzalek Loo<br />

New technologies based on mass spectrometry (MS) <strong>and</strong> proteomics are being developed to address a number of<br />

health-related applications. Parallel approaches that probe complex systems as a unit, rather than one component<br />

at a time best allow <strong>for</strong> the underst<strong>and</strong>ing of protein expression per an organism’s developmental state <strong>and</strong> its<br />

response to the environment. An MS-based surface scanning method has been developed in which proteins are<br />

desorbed directly from 1D isoelectric focusing gels to create a virtual 2D gel; data are presented as an image,<br />

similar to that obtained from a stained 2D gel. Beyond the improved mass accuracy <strong>and</strong> mass resolution provided<br />

by substituting MS <strong>for</strong> SDS-PAGE, the virtual 2D gel has several advantages over the traditional 2D gel, including<br />

high-speed analysis. Small differences between measured <strong>and</strong> predicted molecular weights can flag contributing<br />

post-translational processing <strong>and</strong> protein modification. ESI-MS <strong>for</strong> studying noncovalent complexes has utility<br />

in chemical biology <strong>and</strong> biomedical research. ESI has the ability to ionize macromolecules <strong>and</strong> maintain weak<br />

noncovalent interactions. The mass measurement provides a direct determination of the stoichiometry of the<br />

binding partners in the complex. In addition to identifying the components that are involved in protein interaction<br />

networks, MS studies can identify <strong>and</strong> elucidate the geometry <strong>and</strong> interactions of protein machines, such as the<br />

690 kDa proteasome, the protease responsible <strong>for</strong> protein degradation, <strong>and</strong> the 14 MDa vault, a ribonucleoprotein<br />

particle implicated in multidrug resistance.<br />

1:30 pm Thursday, February 5 Aut<strong>omation</strong> Applications in Process R&D Room A2<br />

Norbert Stoll<br />

University Rostock<br />

R.-Wagner-Str. 31<br />

Rostock, 18119 Germany<br />

norbert.stoll@uni-rostock.de<br />

Microreactor Systems <strong>for</strong> Life Science Application<br />

Co-Author(s)<br />

Arne Allwardt<br />

Kerstin Thurow<br />

The use of combinatorial methods in chemistry <strong>and</strong> life science has been developing rapidly within the last years.<br />

Since there has been numerous developments in the field of pharmaceutical research in microtiter plate <strong>for</strong>mat<br />

there is still a lack of suitable instruments <strong>for</strong> classical. combinatorial chemistry in the mL-range. Synthesis in drug<br />

discovery or catalyst screening requires quite often high temperatures <strong>and</strong> high pressures as reaction condition <strong>for</strong><br />

hydration, carbonylation or oxidation. The often long reaction times requires parallelization of reactors in order to<br />

increase the throughput. Existing instruments are not flexible automated solutions <strong>and</strong> do not have flexible material<br />

<strong>and</strong> in<strong>for</strong>mation interfaces. On the other h<strong>and</strong> they do not always meet the requirements from organic chemists.<br />

To fill this gap an integrated automated system <strong>for</strong> organic high pressure synthesis had to be developed. The<br />

presentation will give an overview about existing systems <strong>and</strong> will show current <strong>and</strong> future developments in the<br />

field of organic high pressure synthesis. Two systems will be demonstrated <strong>for</strong> reactions in the mL-range (multi<br />

parallel reactor array 8/16/24) <strong>and</strong> <strong>for</strong> reactions in the MTP-Format (96 / 384). The systems are high temperature/<br />

high pressure designed. Both systems are integrated into an analytical environment to per<strong>for</strong>m a coupling between<br />

synthesis <strong>and</strong> analysis. The 96/384 system can be operated st<strong>and</strong> alone or by a robot system.<br />

PODIUM ABSTRACTS

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