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A Comparative Study of In-Gel Digestions Using Microwave and Pressure-Accelerated Technologies
Rudy Alvarado, Diana Tran, Bonnie Ching, and Brett S. Phinney*
UC Davis Proteomics Core Facility, University of California Davis Genome Center, Davis, CA 95616, USA

Pressurized Pepsin Digestion in Proteomics: An Automatable Alternative to Trypsin for Integrated Top-down Bottom-up Proteomics
Daniel López-Ferrer1*, Konstantinos Petritis1#, Errol W. Robinson2, Kim K. Hixson2, Zhixin, Tian1, Jung Hwa Lee3, Sang-Won Lee3, Nikola Tolic2, Karl K. Weitz1, Mikhail E. Belov1, Richard D. Smith1 and Ljiljana Paša-Tolic2*
1Biological Science Division, 2Environmental Molecular Sciences Laboratory, Pacific Northwest
National Laboratory, Richland, WA, USA and 3Department of Chemistry, Korea University,
Seoul, Korea


Improved Extraction of DNA of Ca. Liberibacter Species from Plants and Cultivated Cells Using Pressure Cycling Technology
A. Sechler1, A Marques2, N. Lawrence3, N. W. Schaad1
1FDWSRU, USDA-ARS, Fort Detrick, MD USA
2EMBRAPA, Brasilia, Brasil
3Pressure BioSciences Inc., South Easton, MA, USA

A Comparison of Methods for Efficient Digestion of Protein Therapeutics
Lorna L. Maheu, Heather M. Connelly, Adam G. Harder, and Steven L. Cockrill
Analytical Sciences, Amgen Inc., Longmont, CO 80503


Soluble Forms of the Notch Ligands Delta1 and Jagged1 Promote in Vivo Tumorigenicity in NIH3T3 Fibroblasts with Distinct Phenotypes
Sumithra Urs, Alice Roudabush, Christine F. O’Neill, Ilka Pinz, Igor Prudovsky, Doreen Kacer, Yuefang Tang, Lucy Liaw, and Deena Small


Novel efficient alternatives for essential sample preparation techniques in functional proteomics
Emily Freeman and Alexander R. Ivanov
Harvard School of Public Health, Department of Genetics and Complex Diseases


Tandem Mass Spectrometry Analysis of Ex Vivo Amyloid Fibril and Tissue Samples
Zhenning Hong,1Giuseppe Infusini,1Lawreen H. Connors,2Martha Skinner,2Catherine E. Costello1,2
Mass Spectrometry Resource and 2Amyloid Treatment and Research Program, Boston University School of Medicine, Boston, MA USA


Geographic distribution of Rhizoctonia and Pythium species in soils from dryland cereal cropping systems in eastern Washington
K. L. SCHROEDER, P. A. Okubara, and T. C. Paulitz
USDA-ARS, Washington State University, Pullman, WA 99164-6430


Proteomic Comparison of Sun-protected vs -Exposed and Young vs Gently-Aged Human Epithelium
1 Facility Center California R.A. Eigenheer1, J.T. Smilowitz2 and B.S. Phinney1
1. Proteomics Core Facility, Genome Center, University of California, Davis
2. Department of Food Science and Technology, University of California, Davis


Screening for Drug-Drug Interactions Using a Targeted Proteomics Strategy
Daniel B. Kassel1; Kheng B. Lim1; Melinda Manuel1;
Teruaki Okuda2; Naomi Kamiguchi2; Christie L Hunter3; Brian Williamson3; Lydia Nuwaysir3
1Takeda San Diego, Inc, San Diego, CA; 2Takeda Pharmaceutical Company, Limited, Osaka, Japan;
3AB Sciex, Foster City, CA


Application of High Pressure and Highly Stable Trypsin Aggregate Coating on Superparamagnetic Magnetite/Silica Nanoparticles for High Performance Proteomics
Daniel López-Ferrer1, Byoungsoo Lee2, Jungbae Kim2 and Richard D. Smith1
1Pacific Northwest National Laboratory, Richland, WA 99352; 2Korea University, Seoul, Korea


A separation-free quantitative MS-based profiling approach using 2-AA isotopically labeled substrates for high-throughput glycan screening
Justin M. Prien1, Lorna Maheu1, Brad Prater1, and Steve Cockrill1
1Analytical Science, Amgen, Longmont, Colorado 80503


New Strategies for High Pressure-Assisted Digestion in Proteomics
Kim K. Hixson1,2, Daniel López-Ferrer1, Karl K. Weitz1, Ronald J. Moore1, Scott R. Kronewitter1, Heather H. Smallwood3, Mikhail E. Belov1, and Richard D. Smith1
1Pacific Northwest National Laboratory, Richland, WA; 2Washington State University, Pullman, WA; St. Jude Children’s Research Hospital, Memphis, TN


Rapid Release of N-Linked Glycans from Glycoproteins by Pressure-Cycling Technology
Zoltan Szabo, Andras Guttman and Barry L. Karger
Barnett Institute, Northeastern University, Boston


The Effect of Pressure Cycling on Proteolytic Cleavage Efficiency, Reaction Time and Protein Sequence Coverage
Roger Biringer1, Eric Bonneil2, Julian Saba1, Andreas Huhmer1, Pierre Thibault2


Role of luxS in Bacillus Anthracis Growth and Virulence Factor Expression
Marcus B. Jones,1-3,* Scott N. Peterson,1 Rosslyn Benn,1 John C. Braisted,1 Behnam Jarrahi,1 Kenneth Shatzkes,1 Dacheng Ren,4 Thomas K. Wood5 and Martin J. Blaser2,3
1Thermo Fisher Scientific, San Jose, CA 2Institute for Research in Immunology and Cancer, Université de Montréal, Montréal, Canada


PRESSURE CYCLING TECHNOLOGY (PCT): APPLICATIONS FOR FORENSIC DNA ANALYSIS
Pam Marshall
University of North Texas Health Science Center, Center for Human Identification


MALDI and LCMS Protein Biomarkers of Ionizing Radiation
Tiffany Remsen, Vladamir Kachalov, Parth Kothiya, Zeineen A. Momin*, Naresh Vasani, Jason Chouake, Douglas C. Miller, Paul Pevsner
Department of Pathology, University of Missouri School of Medicine Columbia, MO


High-Pressure Assisted In-Gel Tryptic Digestion for Qualitative and Quantitative Characterization of Protein Mixtures
Melkamu Getie-Kebtie and Michael Alterman
FDA-CBER-NIH, Rockville Pike, HFM – 735 Bldg 29A rm 2B20, Bethesda, MD 20892

High Pressure Direct Protein Extraction from Tissue – Trypsin Digest with Pressure Cycling Technology (PCT)
Nicholas Sobol, Jennifer Oprihory*, Parth Kothiya, Zeineen A. Momin, Naresh Vasani, Vladamir Kachalov, Tiffany Remsen, Faraj Al Qaraghuli, Paul H. Pevsner
Department of Pathology University of Missouri School of Medicine, Columbia, MO


A Comparative Study of In-gel Digestions Using Microwave and Pressure Accelerated Technologies
Alvarado, Diana Tran, Bonnie Ching and Brett S. Phinney
University of California Davis


Label-free mass spectrometry-based relative quantitation of proteins separated by 1DE
Melkamu Getie-Kebtie1; Maryna Eichelberger2, Manju B. Joshi13, Rajesh Gupta3, Michail A. Alterman1
1FDA/CBER/OCTGT/TVBB; 2FDA/CBER/OVRR/LPRVD; 3FDA/CBER/OVRR/PQLS

Integral Membrane Protein Extraction and Biomarker Analysis from Solid Metastatic Ovarian Tumors
L.V. Schneider1, V. Likhte1, W. Wright1, F. Chu1, E. Cambron1, A. Baldwin1, J. Krakow1, A. Lazarev2, G. Smejkal3
1Target Discovery, Inc. 2Pressure BioSciences, Inc., 3Harvard LITT

Pressure Cycling Technology Research at UNTCHI
Elizabeth Feller

Pressure enhanced processes (PrEP) enabling high quality two-dimensional gel electrophoresis of Frankia mycelia and vesicle structures
Louis S. Tisa, Gary B. Smejkal Tom Berkelma, Chiara Rivas-Morello, Alexander Trachtenberg and Winston P. Kuo

Pressure Cycling Technology (PCT) Applications for DNA Extractions from Challenging Forensic Samples
Suzanne Gonzalez, Elizabeth Feller, Dixie Peters, Bruce Budowle, and Arthur Eisenberg

DNA EXTRACTION FROM HAIR USING PRESSURE CYCLING TECHNOLOGY
Elizabeth Feller, MS; Suzanne Gonzalez, PhD; Amy Smuts, MS; Bruce Budowle, PhD; Arthur J. Eisenberg, PhD

Phosphopeptide isolation from Caenorhabditis elegans using the ProteoSOLVE, PCT, and PhosphoScan Technologies
Gabrielle E. Giese, Gary B. Smejkal, Feixia Chu, John J. Collins, and Winston P. Kuo

Thermal inactivation prior to 2DGE stabilizes brain proteome
Gary B. Smejkal, Chiara Rivas-Morello, Jae-Hyung Robert Chang, Alexander J. Trachtenberg, John Lindsay, Mats Borén, Alexander Lazarev and Winston P. Kuo

Detection of differential protein expression between individual Daphnia by Pressure Cycling Technology (PCT) and two-dimensional gel electrophoresis
Darren J. Bauer, Gary B. Smejkal, W. Kelley Thomas, Myra Robinson and Winston P. Kuo

Incidence and spatial distribution of Rhizoctonia and Pythium species determined with real-time PCR
K. L. SCHROEDER, T. C. Paulitz, and P. A. Okubara USDA-ARS, Washington State University, Pullman, WA 99164-6430

Top-Down Identification of Bacterial Intact Protein Expression Profile Markers
Melinda A. McFarland; John H. Callahan; Denis Andrzejewski; Rebecca Bell; Steven M. Musser
FDA/CFSAN, College Park, MD - ASMS 2009


Discovery of Mitochondrial Protein Biomarkers of Atrial Fibrillation Using Unique Human Tissue Samples
Maryam Goudarzi1, Mark M. Ross1, Weidong Zhou1, Amy Van Meter1, Emanuel Petricoin1, Lance Liotta1, Lisa Martin2, Chidima Martin2 and Niv Ad2 1George Mason University, Manassas, VA; 2Inova Heart & Vascular Institute, Falls Church, VA

Pressure Enhanced Processing (PrEP) using The PCT Shredder and Pressure Cycling Technology (PCT) maximizes protein yields from the nematode Caenorhabditis elegans under mild, nondenaturing conditions
W. Kelley Thomas, Gary B. Smejkal, Jobriah Anderson, Myra H. Robinson, KrystalynneMorris, and Richard T. Schumacher

Searching for efficient and high-throughput alternatives for essential sample preparation techniques in mass spectrometry-based functional proteomics
Emily Freeman; Yelena Margolin; Alexander R. Ivanov


Soluble Forms of the Notch Ligands Delta1 and Jagged1 Promote in Vivo Tumorigenicity in NIH3T3 Fibroblasts with Distinct Phenotypes
Sumithra Urs, Alice Roudabush, Christine F. O’Neill, Ilka Pinz, Igor Prudovsky, Doreen Kacer, Yuefang Tang, Lucy Liaw, and Deena Small


Pilot Proteomic Profile of Differentially Regulated Proteins in Right Atrial Appendage Before and After Cardiac Surgery Using Cardioplegia and Cardiopulmonary Bypass
Richard T. Clements, Gary Smejkal, Neel R. Sodha, Alexander R. Ivanov, John M. Asara, Jun Feng, Alexander Lazarev, Shiva Gautam, Venkatachalam Senthilnathan, Kamal R. Khabbaz, Cesario Bianchi and Frank W. Sellke


Application of pressurized solvents for ultra fast proteolysis: Proteomics on the fly
DANIEL LOPEZ FERRER; Konstantinos Petritis; Natacha M Lourette; Brian H. Clowers; Kim K. Hixson; Tyler H Heibeck; Eric A. Livesay; Ryan Kelly; David Prior; Ljiljana Pasa-tolic; David G. Camp; Mikhail Belov; Richard D. Smith Pacific Northwest National Laboratory, Richland, WA


Intact Protein Liquid Chromatography Mass Spectrometry for Bacteria Strain Differentiation and Bacterial Toxin Detection
John H. Callahan; Denis Andrzejewski; Rebecca Bell; Eric Brown; Steve Musser FDA/CFSAN, College Park, MD


MALDI Mass Spectrometry Identification of Proteins in a Murine Transgenic Model of Apert Syndrome
G. Rothschild, A. Mansukhani, C. Basilico and P. Pevsner


Growth Inhibition of Retinoic Acid Treated MCF-7 Breast Cancer Cells-Identification of Sox 9 and Other Proteins
T Remsen, P Kessler, A Stern, H Samuels and P Pevsner


Fourier Transform Mass Spectrometry Identification of Disease Biomarker Proteins
P. Pevsner, G. Kruppa, T. Remsen, F. Naftolin, P. Kessler and A. Stern


LCMS Identification of In Vitro Fertilization Culture Media Proteins
P. Pevsner, S. Talebian, T. Remsen, F. Naftolin, P Kessler, A Stern, F. Licciardi and J. Grifo


Mass Spectrometry of Buccal Mucosa -Biomarkers for Biodosimetry in Radiation Incidents
P.H. Pevsner, S. Formenti, T. Remsen, G. Kruppa,P. Kessler, G. Rothschild Jorge Ghiso, J. Melamed, B. S. Rosenstein, R. Schneider, F. Naftolin and A. Stern


Partial-Body Radiation Diagnostic Biomarkers and Medical Management of Radiation Injury Workshop
P.H. Pevsner, S. Formenti, T. Remsen, G. Kruppa, P. Kessler, G. Rothschild, Jorge Ghiso, J. Melamed, B. S. Rosenstein, R. Schneider, F. Naftolin, and A. Stern


Strategies to recover proteins from ocular tissues for proteomics
Nikhil Patel, Ekta Solanki, Renata Picciani, Valerie Cavett , Jennifer A. Caldwell-Busby, Sanjoy K. Bhattacharya, Dr.


Improved extraction of Rhizoctonia and Pythium DNA from wheat roots and soil samples using pressure cycling technology
Patricia A. Okubara, Chunqin Li, Kurtis L. Schroeder, Richard T. Schumacher, and Nathan P. Lawerence


Growth Inhibition of Retinoic Acid Treated MCF-7 Breast Cancer Cells-Identiication of Sox 9
and other Proteins

P. Pevsner, D. Vecchione, T. Remsen, P. Kessler, N. Levers, P. Yang, A. Stern, H. Samuels Department of Pharmacology, New York University School of Medicine, New York, NY, US


Colorectal Carcinoma - Field Defects in Satellite Tissue
P. Pevsner, D. Vecchione, T. Remsen, P. Kessler, M. Momeni, S. Duddempudi, F. Francois, A. Stern, S. Anand
Department of Pharmacology, Department of Medicine, New York University School of Medicine, New York, NY, US The Brooklyn Hospital Center, Brooklyn, New York, US


in-Vitro Fertilization Growth Media Proteins in Competent Embryos
P. Pevsner, F. Naftolin, D. Vecchione, T. Remsen, S. Talebian, P. Kessler, F. Licciardi, and J. Grifo Department of Pharmacology, Department of Obstetrics and Gynecology, Reproductive Endocrinology and Infertility New York University School of Medicine, New York, NY, US


Stroke - Prophylactic Estrogen (Estradiol) Therapy GI 200038, neurofilament-L
David Vecchione, Frederick Naftolin,Tiffany Remsen, Paul Kessler, Arnold Stern, Paul H. Pevsner
Dept of Pharmacology, Department of Obstetrics and Gynecology, New York University School of Medicine, New York, NY, US


Application of pressure-cycling technology to RNA extraction from Legionella pneumophila cells
Mourad FERHAT, Claire ANDREA, Christophe GILBERT and Daniele ATLAN


A Systems Biology Approach to the Pathogenesis of Obesity-related Nonalcoholic Fatty Liver Disease Using Reverse Phase Protein Microarrays for Multiplexed Cell Signaling Analysis
Valerie S. Calvert, Rochelle Collantes, Hazem Elariny, Arian Afendy, Ancha Baranova, Michael Mendoza, Zachary Goodman, Lance A. Liotta, Emanuel F. Petricoin, and Zobair M. Younossi


Proteomic profile of differentially regulated proteins in human myocardium before
and after cardiac surgery utilizing cardioplegia and cardiopulmonary bypass.

Richard T. Clements, Neel R. Sodha, Gary Smejkal, Jun Feng, Sirisha Emani, Venkatachalam Senthilnathan, Alexander Lazarev, Kamal R. Khabbaz, Cesario Bianchi, and Frank W. Sellke.


Colon Cancer: Protein Biomarkers in Tissue and Body Fluids
M. Momeni, MD, P. Pevsner, MD, D. Vecchione, BS, B. Stall,AAS, K. Zaalook, MD, S. Duddempudi, MD, M. Joseph, Department of Gastroeteroogy


Microtubule Associated Proteins (MAP) and Motor Molecules: Direct Tissue
MALDI Identification and Imaging

P. Pevsner, F. Naftolin, D. Vecchione, B. Stall, D. Miller, P. Kessler, A. Stern


The Daphnia Genomics Consortium Meeting: The Genome Biology of the Model
Crustacean Daphnia

Darren J Bauer


Presentations

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A Need for Improved Sample Inactivation and Extraction Methods to Support Systems Biology Analysis of Biological Threat Organisms
1 Bradford S. Powell and 2 Loreen L. Lofts
1 Bacteriology Division, 2 Virology Division
U.S. Army Medical Research Institute of Infectious Diseases, Fort Detrick, MD 21702

Comparison between ultra-high pressure and atmospheric tryptic digestion for proteomic analyses
E. Bonneil1, R. Biringer2, C. Bell1, P. Thibault1
1Institute for Research in Immunology and Cancer Université de Montréal; 2Thermo Fisher Scientific


Pressure Cycling Technology (PCT) Augments Sensitivity of Detection and Robustness in Forensic DNA Analyses
Bruce Budowle
Department of Forensic and Investigative Genetics, Institute of Investigative Genetics, University of North Texas Health Science Center, Ft. Worth, Texas


Convenient and Reliable Extraction of Borrelia burgdorferi from Ticks Using Pressure Cycling Technology and the PCT Shredder
Richard C. Tilton, Ph.D.
Medical Diagnostics Laboratories

RAPID SAMPLE PREPARATION METHODS FOR THE ANALYSIS OF N-LINKED GLYCANS
Zoltan Szabo, András Guttman, Tomas Rejtar and Barry L. Karger
Barnett Institute, Boston, MA, USA

Development of Essential Sample Preparation Techniques in Proteomics Using Ultra-High Pressure
Emily Freeman and Alexander R. Ivanov
Harvard School of Public Health, HSPH Proteomics Resource, Department of Genetics and Complex Diseases, Boston, MA 2115

Development of new technology approaches for high-throughput proteome analysis
Capitalizing on thermodynamic principles to reduce sample preparation times from hours to minutes
Daniel López-Ferrer, Biological Separations & Mass Spectrometry Group, Pacific Northwest National Laboratory

High Pressure Direct Protein Extraction from Tissue – Trypsin Digest with Pressure Cycling Technology (PCT)
Paul H. Pevsner, Jennifer Oprihory, Nicholas Sobol, Parth Kothiya, Zeineen A. Momin, Naresh Vasani, and Tiffany Remsen
Department of Pathology, University of Missouri School of Medicine, Columbia, MO

Membrane Protein Extraction and Biomarker Analysis from Solid Metastatic Ovarian Tumors with ProteoSolve™-TD Buffers and Pressure Cycling Technology
Dr. Luke V. Schneider, CSO, Target Discovery, Inc.