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SPS' Digest

Issue 06, 30-Apr-2004

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In this issue, 93 articles have been selected from:
Disclaimer: The selection and categorisation reflect the views and understandings of contributors (i.e. SPS members).

Quick jumps to articles in: Bioinformatics (10) / Biological applications (11) / Biomedical applications (7) / Clinical applications (22) / Eukaryotic Cells And Tissues (1) / Prokaryotes (7) / Oncology (1) / Protein Array (1) / Protein Characterization (4) / Protein-protein interaction (1) / PTMs (6) / Quantitation (4) / Review (6) / Methodology (21) / Books (3) / Meeting (2) / Other (5) /

Bioinformatics

A new technique (COMSPARI) to facilitate the identification of minor compounds in complex mixtures by GC/MS and LC/MS: tools for the visualization of matched datasets
Jonathan E. Katz, Darren S. Dumlao, Steven Clarke and Jorg Hau
Journal of The American Society for Mass Spectrometry (2004) 15(4): 580-584

The analysis of tandem mass spectrometric datasets: high-throughput investigations require high-quality validation
Sarah R. Hart and Isabel Riba-Garcia
Drug Discovery Today (2004) 9(9): 391-392

Web-accessible proteome databases for microbial research
Klaus-Peter Pleißner, Till Eifert, Sven Buettner, Frank Schmidt, Martina Boehme, Thomas F. Meyer, Stefan H. E. Kaufmann, Peter R. Jungblut
PROTEOMICS (2004) 4(5): 1305-1313

GelScape: a web-based server for interactively annotating, manipulating, comparing and archiving 1D and 2D gel images
Nelson Young, Zhan Chang, and David S. Wishart
Bioinformatics (2004) 20(6): 976-978

Extracting human protein interactions from MEDLINE using a full-sentence parser
Nikolai Daraselia , Anton Yuryev , Sergei Egorov , Svetalana Novichkova , Alexander Nikitin , and Ilya Mazo
Bioinformatics (2004) 20(5): 604-611

Reproducibility of SELDI-TOF protein patterns in serum: comparing datasets from different experiments
Keith A. Baggerly , Jeffrey S. Morris , and Kevin R. Coombes
Bioinformatics (2004) 20(5): 777-785

In-silico identification of chicken immune-related genes
Smith J, Speed D, Law AS, Glass EJ, Burt DW
Immunogenetics Early Edition: published 24-April-2004

Towards a standardized human proteome database: Quantitative proteome profiling of living cells
Elisabeth Traxler, Editha Bayer, Johannes Stöckl, Thomas Mohr, Christof Lenz, Christopher Gerner
PROTEOMICS (2004) 4(5): 1314-1323

Determining a significant change in protein expression with DeCyderTM during a pair-wise comparison using two-dimensional difference gel electrophoresis
Natasha A. Karp, David P. Kreil, Kathryn S. Lilley
PROTEOMICS (2004) 4(5): 1421-1432

RELIC - A bioinformatics server for combinatorial peptide analysis and identification of protein-ligand interaction sites
Suneeta Mandava, Lee Makowski, Satish Devarapalli, Joseph Uzubell, Diane J. Rodi
PROTEOMICS (2004) 4(5): 1439-1460

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Biological applications

The Human Plasma Proteome: A Nonredundant List Developed by Combination of Four Separate Sources
N. Leigh Anderson, Malu Polanski, Rembert Pieper, Tina Gatlin, Radhakrishna S. Tirumalai, Thomas P. Conrads, Timothy D. Veenstra, Joshua N. Adkins, Joel G. Pounds, Richard Fagan, and Anna Lobley
Mol Cell Proteomics (2004) 3(4): 311-326

The Human Proteome Organization Plasma Proteome Project pilot phase: Reference specimens, technology platform comparisons, and standardized data submissions and analyses
Gilbert S. Omenn
PROTEOMICS (2004) 4(5): 1235-1240

Tumor suppressor Smad4 mediates downregulation of the anti-adhesive invasion-promoting matricellular protein SPARC: Landscaping activity of Smad4 as revealed by a ?secretome? analysis
Martin W. Volmer, Yvonne Radacz, Stephan A. Hahn, Susanne Klein-Scory, Kai Stühler, Marc Zapatka, Wolff Schmiegel, Helmut E. Meyer, Irmgard Schwarte-Waldhoff
PROTEOMICS (2004) 4(5): 1324-1334

Proteomic approach to the identification of voltage-dependent anion channel protein isoforms in guinea pig brain synaptosomes
Sabrina Liberatori, Benito Canas, Chiara Tani, Luca Bini, Giuseppe Buonocore, Jasminka Godovac-Zimmermann, Om P. Mishra, Maria Delivoria-Papadopoulos, Rodolfo Bracci, Vitaliano Pallini
PROTEOMICS (2004) 4(5): 1335-1340

Proteins associated with type II bone morphogenetic protein receptor (BMPR-II) and identified by two-dimensional gel electrophoresis and mass spectrometry
Sylke Hassel, Annegret Eichner, Mariya Yakymovych, Ulf Hellman, Petra Knaus, Serhiy Souchelnytskyi
PROTEOMICS (2004) 4(5): 1346-1358

Microheterogeneity of the major grass group 6 allergen Phl p 6: Analysis by mass spectrometry
Cornelia Blume, Buko Lindner, Wolf-Meinhard Becker, Arnd Petersen
PROTEOMICS (2004) 4(5): 1366-1371

Molecular Profiling of Experimental Parkinson's Disease: Direct Analysis of Peptides and Proteins on Brain Tissue Sections by MALDI Mass Spectrometry
Johan Pierson, Jeremy L. Norris, Hans-Rudolf Aerni, Per Svenningsson, Richard M. Caprioli, and Per E. Andre'n
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 289-295

Proteomics in Malaria
Jeffrey R. Johnson, Laurence Florens, Daniel J. Carucci, and John R. Yates III
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 296-306

Liquid Chromatography MALDI MS/MS for Membrane Proteome Analysis
Nan Zhang, Nan Li, and Liang Li
JOURNAL OF PROTEOME RESEARCH Early Edition: published 04/16/2004

Proteomic investigation of natural variation between Arabidopsis ecotypes
François Chevalier, Olivier Martin, Valérie Rofidal, Anne-Dominique Devauchelle, Samuel Barteau, Nicolas Sommerer, Michel Rossignol
PROTEOMICS (2004) 4(5): 1372-1381

Brain proteome of mice lacking the receptors for tumor necrosis factor ?
Vojislav Pejovi?, Vuki? ?o?ki?, Weihong Pan, Abba J. Kastin
PROTEOMICS (2004) 4(5): 1461-1464

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Biomedical applications

Mass Spectrometry as a Diagnostic and a Cancer Biomarker Discovery Tool: Opportunities and Potential Limitations
Eleftherios P. Diamandis
Mol Cell Proteomics (2004) 3(4): 367-378

Proteomics: Is It an Approach To Understand the Progression of Chronic Lung Disorders?
Ruth Sepper and Kaiu Prikk
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 277-281

Use of Proteomics to Discover Novel Markers of Cardiac Allograft Rejection
Svetlana Borozdenkova, Jules A. Westbrook, Vaksha Patel, Robin Wait, Islam Bolad, Margaret M. Burke, Alexander D. Bell, Nicholas R. Banner, Michael J. Dunn, and Marlene L. Rose
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 282-288

Proteome and Transcriptome Analysis of Retinoic Acid-Induced Differentiation of Human Acute Promyelocytic Leukemia Cells, NB4
Daojing Wang, # Ronald Jensen, Gurmil Gendeh, Maria G. Pallavicini
JOURNAL OF PROTEOME RESEARCH Early Edition: published 04/16/2004

Heterogeneous nuclear ribonucleoprotein A2/B1 identified as an autoantigen in autoimmune hepatitis by proteome analysis
Stčphanie Huguet, Valčrie Labas, Jean-Charles Duclos-Vallee, Arnaud Bruneel, Joëlle Vinh, Didier Samuel, Catherine Johanet, Eric Ballot
PROTEOMICS (2004) 4(5): 1341-1345

Proteomics analysis of human endothelial cell line EA.hy926 after exposure to GSM 900 radiation
Reetta Nylund, Dariusz Leszczynski
PROTEOMICS (2004) 4(5): 1359-1365

Intregrated analysis of the human cardiac transcriptome, proteome and phosphoproteome
Cristian I. Ruse, Fen-Lai Tan, Michael Kinter, Meredith Bond
PROTEOMICS (2004) 4(5): 1505-1516

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Clinical applications

HUPO Initiatives Relevant to Clinical Proteomics
Sam Hanash
Mol Cell Proteomics (2004) 3(4): 298-301

Clinical Infrastructures to Support Proteomic Studies of Tissue and Fluids in Breast Cancer
Henning T. Mouridsen and Nils Brunner
Mol Cell Proteomics (2004) 3(4): 302-310

Progress and Challenges in Screening for Early Detection of Ovarian Cancer
Ian J. Jacobs and Usha Menon
Mol Cell Proteomics (2004) 3(4): 355-366

Intregrated analysis of the human cardiac transcriptome, proteome and phosphoproteome
Cristian I. Ruse, Fen-Lai Tan, Michael Kinter, Meredith Bond
PROTEOMICS (2004) 4(5): 1505-1516

Proteomics and Disease- The Challenges for Technology and Discovery
Gyo"rgy Marko-Varga and Thomas E. Fehniger
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 167-178

Proteomics Strategies in Cardiovascular Research
Hans-Reinhard Zerkowski, Thomas Grussenmeyer, Peter Matt, Martin Grapow, Stefan Engelhardt, and Ivan Lefkovits
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 200-208

Clinical Proteomics: Revolutionizing Disease Detection and Patient Tailoring Therapy
Emanuel Petricoin, Julia Wulfkuhle, Virginia Espina, and Lance A. Liotta
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 209-217

Assessing Protein Patterns in Disease Using Imaging Mass Spectrometry
Pierre Chaurand, Sarah A. Schwartz, and Richard M. Caprioli
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 245-252

Implications of New Proteomics Strategies for Biology and Medicine
Bruno Domon and Samuel Broder
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 253-260

Proteomics: Is It an Approach To Understand the Progression of Chronic Lung Disorders?
Ruth Sepper and Kaiu Prikk
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 277-281

Use of Proteomics to Discover Novel Markers of Cardiac Allograft Rejection
Svetlana Borozdenkova, Jules A. Westbrook, Vaksha Patel, Robin Wait, Islam Bolad, Margaret M. Burke, Alexander D. Bell, Nicholas R. Banner, Michael J. Dunn, and Marlene L. Rose
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 282-288

Molecular Profiling of Experimental Parkinson's Disease: Direct Analysis of Peptides and Proteins on Brain Tissue Sections by MALDI Mass Spectrometry
Johan Pierson, Jeremy L. Norris, Hans-Rudolf Aerni, Per Svenningsson, Richard M. Caprioli, and Per E. Andre'n
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 289-295

Proteomics in Malaria
Jeffrey R. Johnson, Laurence Florens, Daniel J. Carucci, and John R. Yates III
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 296-306

Exploring the Context of the Lung Proteome within the Airway Mucosa Following Allergen Challenge
Thomas E. Fehniger, Jose'-Gabriel Sato-Folatre, Johan Malmstro"m, Magnus Berglund, Claes Lindberg, Charlotte Brange, Henrik Lindberg, and Gyo"rgy Marko-Varga
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 307-320

Proteome and Transcriptome Analysis of Retinoic Acid-Induced Differentiation of Human Acute Promyelocytic Leukemia Cells, NB4
Daojing Wang, # Ronald Jensen, Gurmil Gendeh, Maria G. Pallavicini
JOURNAL OF PROTEOME RESEARCH Early Edition: published 04/16/2004

How Industry Is Approaching the Search for New Diagnostic Markers and Biomarkers
J. Werner Zolg and Hanno Langen
Mol Cell Proteomics (2004) 3(4): 345-354

Mass Spectrometry as a Diagnostic and a Cancer Biomarker Discovery Tool: Opportunities and Potential Limitations
Eleftherios P. Diamandis
Mol Cell Proteomics (2004) 3(4): 367-378

The Human Plasma Proteome: A Nonredundant List Developed by Combination of Four Separate Sources
N. Leigh Anderson, Malu Polanski, Rembert Pieper, Tina Gatlin, Radhakrishna S. Tirumalai, Thomas P. Conrads, Timothy D. Veenstra, Joshua N. Adkins, Joel G. Pounds, Richard Fagan, and Anna Lobley
Mol Cell Proteomics (2004) 3(4): 311-326

Proteomic Characterization of the Interstitial Fluid Perfusing the Breast Tumor Microenvironment: A Novel Resource for Biomarker and Therapeutic Target Discovery
Julio E. Celis, Pavel Gromov, Teresa Cabezon, Jose M. A. Moreira, Noona Ambartsumian, Kerstin Sandelin, Fritz Rank, and Irina Gromova
Mol Cell Proteomics (2004) 3(4): 327-344

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Eukaryotic Cells And Tissues

Proteomics of the rice cell: systematic identification of the protein populations in subcellular compartments
N. Tanaka, M. Fujita, H. Handa, S. Murayama, M. Uemura, Y. Kawamura, T. Mitsui, S. Mikami, Y. Tozawa, T. Yoshinaga and S. Komatsu
Molecular Genetics and Genomics Early Edition: published 7-April-2004

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Prokaryotes

Proteome analysis of intraclonal diversity of two Pseudomonas aeruginosa TB clone isolates
Catalina Arevalo-Ferro, Julia Buschmann, Gerold Reil, Angelika Görg, Lutz Wiehlmann, Burkhard Tümmler, Leo Eberl, Kathrin Riedel
PROTEOMICS (2004) 4(5): 1241-1246

Comparison of the proteome of Methylobacterium extorquens AM1 grown under methylotrophic and nonmethylotrophic conditions
Markus Laukel, Michel Rossignol, Gisčle Borderies, Uwe Völker, Julia A. Vorholt
PROTEOMICS (2004) 4(5): 1247-1264

Effect of high concentration of Co (II) on Enterobacter liquefaciens strain C-1: A bacterium highly resistant to heavy metals with an unknown genome.
Jeannette Marrero, Luis Javier González, Aniel Sánchez, Marta Ayala, Dalila Paz-Lago, Wendy González, Adyary Fallarero, Lila Castellanos-Serra, Orquídea Coto
PROTEOMICS (2004) 4(5): 1265-1279

Proteome analysis of Madrid E strain of Rickettsia prowazekii
Chien-Chung Chao, Dirk Chelius, Terry Zhang, Lindsey Daggle, Wei-Mei Ching
PROTEOMICS (2004) 4(5): 1280-1292

Web-accessible proteome databases for microbial research
Klaus-Peter Pleißner, Till Eifert, Sven Buettner, Frank Schmidt, Martina Boehme, Thomas F. Meyer, Stefan H. E. Kaufmann, Peter R. Jungblut
PROTEOMICS (2004) 4(5): 1305-1313

A proteomic view of cell physiology of Bacillus licheniformis
Birgit Voigt, Thomas Schweder, Dörte Becher, Armin Ehrenreich, Gerhard Gottschalk, Jörg Feesche, Karl-Heinz Maurer, Michael Hecker
PROTEOMICS (2004) 4(5): 1465-1490

A proteome reference map for Vibrio cholerae El Tor
Ana Coelho, Eidy de Oliveira Santos, Mauro Luiz da Hora Faria, Daniela Palermo de Carvalho, Marcia Regina Soares, Wanda Maria Almeida von Kruger, Paulo Mascarello Bisch
PROTEOMICS (2004) 4(5): 1491-1504

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Oncology

Development of Natural Protein Microarrays for Diagnosing Cancer Based on an Antibody Response to Tumor Antigens
Ji Qiu, Juan Madoz-Gurpide, David E. Misek, Rork Kuick, Dean E. Brenner, George Michailidis, Brian B. Haab, Gilbert S. Omenn, and Sam Hanash
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 261-267

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Protein Array

Double chip protein arrays using recombinant single-chain Fv antibody fragments
Ilka Gilbert, Susanne Schiffmann, Susanne Rubenwolf, Kristian Jensen, Thao Mai, Christian Albrecht, Andreas Lankenau, Gerald Beste, Kerstin Blank, Hermann E. Gaub, Hauke Clausen-Schaumann
PROTEOMICS (2004) 4(5): 1417-1420

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Protein Characterization

Membrane protease proteomics: Isotope-coded affinity tag MS identification of undescribed MT1-matrix metalloproteinase substrates
Eric M. Tam, Charlotte J. Morrison, Yi I. Wu, M. Sharon Stack, and Christopher M. Overall
PNAS Early Edition: published 26 April 2004

A comprehensive approach for establishment of the platform to analyze functions of KIAA proteins: Generation and evaluation of anti-mKIAA antibodies
Hisashi Koga, Kiyo Shimada, Yasuhiro Hara, Mihoko Nagano, Hiroshi Kohga, Ryo Yokoyama, Yayoi Kimura, Sigeaki Yuasa, Junji Magae, Susumu Inamoto, Noriko Okazaki, Osamu Ohara
PROTEOMICS (2004) 4(5): 1412-1416

Molecular-Level Description of Proteins from Saccharomyces cerevisiae Using Quadrupole FT Hybrid Mass Spectrometry for Top Down Proteomics
Fanyu Meng, Yi Du, Leah M. Miller, Steven M. Patrie, Dana E. Robinson, and Neil L. Kelleher
ANALYTICAL CHEMISTRY Early Edition: published 04/16/2004

A New Strategy for Identification of N-Glycosylated Proteins and Unambiguous Assignment of Their Glycosylation Sites Using HILIC Enrichment and Partial Deglycosylation
Per Hägglund, Jakob Bunkenborg, Felix Elortza, Peter Roepstorff
JOURNAL OF PROTEOME RESEARCH Early Edition: published 04/16/2004

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Protein-protein interaction

Network motifs in integrated cellular networks of transcription-regulation and protein-protein interaction
Esti Yeger-Lotem, Shmuel Sattath, Nadav Kashtan, Shalev Itzkovitz, Ron Milo, Ron Y. Pinter, Uri Alon, and Hanah Margalit
PNAS Early Edition: published 12 April 2004

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PTMs

A New Strategy for Identification of N-Glycosylated Proteins and Unambiguous Assignment of Their Glycosylation Sites Using HILIC Enrichment and Partial Deglycosylation
Per Hägglund, Jakob Bunkenborg, Felix Elortza, Peter Roepstorff
JOURNAL OF PROTEOME RESEARCH Early Edition: published 04/16/2004

Enzymatic digestion and mass spectrometry in the study of advanced glycation end products/peptides
Annunziata Lapolla, Domenico Fedele, Rachele Reitano, Nadia Concetta Arico, Roberta Seraglia, Pietro Traldi, Ester Marotta and Roberto Tonani
Journal of The American Society for Mass Spectrometry (2004) 15(4): 496-509

Concanavalin A chromatography coupled to two-dimensional gel electrophoresis improves protein expression studies of the serum proteome
Ana Maria Rodriguez-Pineiro, Daniel Ayude, Francisco Javier Rodriguez-Berrocal and Maria Paez de la Cadena
Journal of Chromatography B (2004) 803(2): 337-343

Identification and analysis of phosphopeptides
Michael J. Chalmers, Walter Kolch, Mark R. Emmett, Alan G. Marshall and Harald Mischak
Journal of Chromatography B (2004) 803(1): 111-120

Protein S-Glutathiolation Triggered by Decomposed S-Nitrosoglutathione
Limei Tao and Ann M. English
BIOCHEMISTRY (2004) 43(13): 4028-4038

Differential phosphoproteome profiling by affinity capture and tandem matrix-assisted laser desorption/ionization mass spectrometry
Metodi V. Metodiev, Anna Timanova, David E. Stone
PROTEOMICS (2004) 4(5): 1433-1438

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Quantitation

Absolute Quantification of the Model Biomarker Prostate-Specific Antigen in Serum by LC-MS/MS Using Protein Cleavage and Isotope Dilution Mass Spectrometry
David R. Barnidge, Marcia K. Goodmanson, George G. Klee, and David C. Muddiman
JOURNAL OF PROTEOME RESEARCH Early Edition: published 04/16/2004

A method for calculating 16o/18o peptide ion ratios for the relative quantification of proteomes
Kenneth L. Johnson and David C. Muddiman
Journal of The American Society for Mass Spectrometry (2004) 15(4): 437-445

Measure of carbon and nitrogen stable isotope ratios in cultured cells
R. Peteranderl and C. Lechene
Journal of The American Society for Mass Spectrometry (2004) 15(4): 478-485

Mass Spectrometric Quantitation of Peptides and Proteins Using Stable Isotope Standards and Capture by Anti-Peptide Antibodies (SISCAPA)
N. Leigh Anderson, Norman G. Anderson, Lee R. Haines, Darryl B. Hardie, Robert W. Olafson, and Terry W. Pearson
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 235-244

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Review

French Swimwear for Membrane Proteins
Charles R. Sanders, Amy Kuhn Hoffmann, Don N. Gray, Melvin H. Keyes, Charles D. Ellis
ChemBioChem (2004) 5(4): 423-426

Comprehensive proteome analysis by chromatographic protein prefractionation
Pierre Lescuyer, Denis F. Hochstrasser, Jean-Charles Sanchez
ELECTROPHORESIS (2004) 25(7-8): 1125-1135

Proteomics Strategies in Cardiovascular Research
Hans-Reinhard Zerkowski, Thomas Grussenmeyer, Peter Matt, Martin Grapow, Stefan Engelhardt, and Ivan Lefkovits
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 200-208

Clinical Proteomics: Revolutionizing Disease Detection and Patient Tailoring Therapy
Emanuel Petricoin, Julia Wulfkuhle, Virginia Espina, and Lance A. Liotta
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 209-217

Mining Disease Susceptibility Genes through SNP Analyses and Expression Profiling Using MALDI-TOF Mass Spectrometry
Kai Tang, Paul Oeth, Stefan Kammerer, Mikhail F. Denissenko, Jonas Ekblom, Christian Jurinke, Dirk van den Boom, Andreas Braun, and Charles R. Cantor
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 218-227

Implications of New Proteomics Strategies for Biology and Medicine
Bruno Domon and Samuel Broder
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 253-260

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Methodology

Liquid Chromatography MALDI MS/MS for Membrane Proteome Analysis
Nan Zhang, Nan Li, and Liang Li
JOURNAL OF PROTEOME RESEARCH Early Edition: published 04/16/2004

Capillary Isoelectric Focusing with Laser-Induced Fluorescence Whole Column Imaging Detection as a Tool To Monitor Reactions of Proteins
Zhen Liu and Janusz Pawliszyn
JOURNAL OF PROTEOME RESEARCH Early Edition: published 04/23/2004

Improved PSD and CID on a MALDI TOFMS
Andrew J. Hoteling and Kevin G. Owens
Journal of The American Society for Mass Spectrometry (2004) 15(4): 523-535

Advances in the study of luminescence probes for proteins
Changxia Sun, Jinghe Yang, Lei Li, Xia Wu, Yang Liu and Shufang Liu
Journal of Chromatography B (2004) 803(2): 173-190

"Reverse-staining" of biomolecules in electrophoresis gels: analytical and micropreparative applications
Eugenio Hardy and Lila R. Castellanos-Serra
Analytical Biochemistry (2004) 328(1): 1-13

Identification of an inhibitor-binding site to HIV-1 integrase with affinity acetylation and mass spectrometry
Nick Shkriabai, Sachindra S. Patil, Sonja Hess, Scott R. Budihas, Robert Craigie, Terrence R. Burke, Jr., Stuart F. J. Le Grice, and Mamuka Kvaratskhelia
PNAS Early Edition: published 26 April 2004

Proteomic Analysis of Integral Plasma Membrane Proteins
Yingxin Zhao, Wei Zhang, Yoonjung Kho, and Yingming Zhao
ANALYTICAL CHEMISTRY (2004) 76(7): 1817-1823

In-Gel Digestion of Proteins Using a Solid-Phase Extraction Microplate
Mikkel Nissum, Ulrich Schneider, Sabine Kuhfuss, Christian Obermaier, Robert Wildgruber, Anton Posch, and Christoph Eckerskorn
ANALYTICAL CHEMISTRY (2004) 76(7): 2040-2045

Narrow-band fractionation of proteins from whole cell lysates using isoelectric membrane focusing and nonporous reversed-phase separations
Yi Zhu, David M. Lubman
ELECTROPHORESIS (2004) 25(7-8): 949-958

Fast visible dye staining of proteins in one- and two-dimensional sodium dodecyl sulfate-polyacrylamide gels compatible with matrix assisted laser desorption/ionization-mass spectrometry
Jung-Kap Choi, Ho-Zoon Chae, Sun-Young Hwang, Hoon-In Choi, Li-Tai Jin, Gyurng-Soo Yoo
ELECTROPHORESIS (2004) 25(7-8): 1136-1141

Integrated and Ultrasensitive Gel Protein Identification
Jonathan W. Cooper and Cheng S. Lee
ANALYTICAL CHEMISTRY (2004) 76(8): 2196-2202

High-Throughput Identification of Proteins and Unanticipated Sequence Modifications Using a Mass-Based Alignment Algorithm for MS/MS de Novo Sequencing Results
Brian C. Searle, Surendra Dasari, Mark Turner, Ashok P. Reddy, Dongseok Choi, Phillip A. Wilmarth, Ashley L. McCormack, Larry L. David, and Srinivasa R. Nagalla
ANALYTICAL CHEMISTRY (2004) 76(8): 2220-2230

Guanidino Labeling Derivatization Strategy for Global Characterization of Peptide Mixtures by Liquid Chromatography Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry
Francesco L. Brancia, Helen Montgomery, Koichi Tanaka, and Sumio Kumashiro
ANALYTICAL CHEMISTRY Early Edition: published 04/16/2004

On-Line Coupling of High-Performance Liquid Chromatography to a Continuous-Flow Enzyme Assay Based on Electrospray Ionization Mass Spectrometry
Arjen R. de Boer, Thomas Letzel, Danny A. van Elswijk, Wilfried M. A. Niessen, and Hubertus Irth
ANALYTICAL CHEMISTRY Early Edition: published 04/16/2004

Assessing Protein Patterns in Disease Using Imaging Mass Spectrometry
Pierre Chaurand, Sarah A. Schwartz, and Richard M. Caprioli
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 245-252

Chemistry-Based Functional Proteomics: Mechanism-Based Activity-Profiling Tools for Ubiquitin and Ubiquitin-like Specific Proteases
Joris Hemelaar, Paul J. Galardy, Anna Borodovsky, Benedikt M. Kessler, Hidde L. Ploegh, and Huib Ovaa
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 268-276

Setting up standards and a reference map for the alkaline proteome of the Gram-positive bacterium Lactococcus lactis
Oliver Drews, Gerold Reil, Harun Parlar, Angelika Görg
PROTEOMICS (2004) 4(5): 1293-1304

A combination of different mass spectroscopic techniques for the analysis of dynamic changes of histone modifications
Tiziana Bonaldi, Axel Imhof, Jörg T. Regula
PROTEOMICS (2004) 4(5): 1382-1396

Convenient and versatile subcellular extraction procedure, that facilitates classical protein expression profiling and functional protein analysis
Afsaneh Abdolzade-Bavil, Scott Hayes, Lothar Goretzki, Michaela Kröger, Jonas Anders, Robertus Hendriks
PROTEOMICS (2004) 4(5): 1397-1405

Nondenaturing two-dimensional electrophoresis enzyme profile involving activity and sequence structure of cytosol proteins from mouse liver
Youji Shimazaki, Yuki Sugawara, Takashi Manabe
PROTEOMICS (2004) 4(5): 1406-1411

Optimization of the first dimension for separation by two-dimensional gel electrophoresis of basic proteins from human brain tissue (Proteomics 2004, vol. 4, issue 1, pp. 27-30)
Kyla Pennington, Emma McGregor, Clare L. Beasley, Ian Everall, David Cotter, Michael J. Dunn
PROTEOMICS (2004) 4(5): 1519

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Books

Book Reviews: HPLC of Peptides and Proteins: Methods and Protocols. By Marie-Isabel Aguilar (Editor)
Fulvio Magni
PROTEOMICS (2004) 4(5): 1517

Book Reviews: Plant Genomics and Proteomics. By Christopher A. Cullis
Dominique Job
PROTEOMICS (2004) 4(5): 1518

Book Reviews: Molecular Diagnosis of Infectious Disease. By Jochen Decker and Udo Reischel (Editors)
Phillip Cash
PROTEOMICS (2004) 4(5): 1518-1519

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Meeting

Proteomic Forum '03: International Meeting on Proteome Analysis
Angelika Görg, Walter Weiss
PROTEOMICS (2004) 4(5): NA

Meetings: Proteomics 5/2004
PROTEOMICS (2004) 4(5): 1520

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Other

Integration of On-Line Protein Digestion, Peptide Separation, and Protein Identification Using Pepsin-Coated Photopolymerized Sol-Gel Columns and Capillary Electrophoresis/Mass Spectrometry
Masaru Kato, Kumiko Sakai-Kato, HongMei Jin, Kazuyuki Kubota, Hiroshi Miyano, Toshimasa Toyo'oka, Maria T. Dulay, and Richard N. Zare
ANALYTICAL CHEMISTRY (2004) 76(7): 1896-1902

Proteomics and Disease- The Challenges for Technology and Discovery
Gyo"rgy Marko-Varga and Thomas E. Fehniger
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 167-178

Systems Biology, Proteomics, and the Future of Health Care: Toward Predictive, Preventative, and Personalized Medicine
Andrea D. Weston and Leroy Hood
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 179-196

Building a Foundation for the Human Proteome: The Role of the Human Proteome Organization
Sam Hanash
JOURNAL OF PROTEOME RESEARCH (2004) 3(2): 197-199

New on the Market: Proteomics 5/2004
PROTEOMICS (2004) 4(5): 1521-1523

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