SPS' Digest

Issue 11, 11-Oct-2004

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Quick jumps to articles in: Bioinformatics (18) / Biological applications (30) / Biomedical and clinical applications (20) / Eukaryotic Cells And Tissues (4) / Prokaryotes (31) / Pharmacology and Toxicology (1) / Protein Array (7) / Protein Characterization - PTMs (20) / Quantitation (3) / Review (13) / Methodology (37) / Books (4) / Meeting (2) / Other (8) /

In this issue, 184 articles have been selected from:

Amino Acids, Early Edition, 4-Oct-2004 (2 articles)
Anal Bioanal Chem, Early Edition, 2004 Sep 22 (1 article)
Anal Chem, Volume 76, Issues 17+18+19, 2004 (8 articles)
Analytical Biochemistry, Volume 332, Issues 1+2, 2004 (3 articles)
Analytical Biochemistry, Volume 333, Issue 2, 2004 (2 articles)
Appl Environ Microbiol, Volume 70, Issue 9, 2004 (1 article)
Artif Intell Med, Volume 32, Issue 2, 2004 (1 article)
BMC Genomics, Volume 5, Issue 1, 2004 (1 article)
Bioinformatics, Volume 20, Issues 13+14, 2004 (5 articles)
Biomed Microdevices, Volume 6, Issue 3, 2004 (1 article)
Biotechnol Bioeng, Early Edition, 30-Sep-2004 (1 article)
Brain Res Mol Brain Res, Volume 128, Issue 2, 2004 (1 article)
Curr Opin Microbiol, Volume 7, Issue 4, 2004 (1 article)
Current Opinion in Chemical Biology, Volume 8, Issue 5, 2004 (1 article)
DNA Res, Volume 11, Issue 2, 2004 (1 article)
Drug Discov Today, Volume 9, Issue 18, 2004 (1 article)
Electrophoresis, Volume 25, Issue 18-19, 2004 (16 articles)
Expert Rev Proteomics, Volume 1, Issue 3, 2004 (13 articles)
FASEB J, Early Edition, 9-Sep-2004 (1 article)
Genome Biol, Volume 5, Issue 10, 2004 (1 article)
IEEE Trans Nanobioscience, Volume 2, Issue 4, 2003 (1 article)
Int Immunopharmacol, Volume 4, Issue 12, 2004 (1 article)
Int J Mol Med, Volume 14, Issue 1, 2004 (1 article)
International Journal of Mass Spectrometry, Volume 236, Issue 1-3, 2004 (2 articles)
J Am Soc Mass Spectrom, Volume 15, Issues 8+9, 2004 (2 articles)
J Biochem Biophys Methods, Volume 60, Issue 3, 2004 (2 articles)
J Biol Chem, Early Edition, 22-Sep-2004->27-Sep-2004 (2 articles)
J Chromatogr A, Volume 1044, Issue 1-2, 2004 (2 articles)
J Chromatogr A, Volume 1049, Issue 1-2, 2004 (1 article)
J Chromatogr B, Volume 810, Issue 1, 2004 (1 article)
J Microbiol, Volume 42, Issue 3, 2004 (1 article)
J Proteome Res, Early Edition, 09/17/2004->10/08/2004 (8 articles)
J Proteome Res, Volume 3, Issue 4, 2004 (6 articles)
J Sep Sci, Volume 27, Issue 10-11, 2004 (1 article)
J Thromb Haemost, Volume 2, Issue 10, 2004 (1 article)
J Urol, Volume 172, Issue 4, Part 1 Of 2, 2004 (1 article)
J Virol, Volume 78, Issue 20, 2004 (2 articles)
Journal of the American Society for Mass Spectrometry, Volume 15, Issue 9, 2004 (2 articles)
Mass Spectrom Rev, Early Edition, 30-Mar-2004->16-Sep-2004 (6 articles)
Medinfo, Volume 2004, Issue CD, 2004 (2 articles)
Mol Biotechnol, Volume 28, Issue 1, 2004 (1 article)
Mol Cell Proteomics, Early Edition, 14-Sep-2004 (1 article)
Mol Cell Proteomics, Volume 3, Issue 9, 2004 (8 articles)
Mol Plant Microbe Interact, Volume 17, Issue 9, 2004 (1 article)
Nat Biotechnol, Volume 22, Issues 9+10, 2004 (4 articles)
Nat Rev Mol Cell Biol, Volume 5, Issue 9, 2004 (1 article)
Nature, Volume 431, Issue 7008, 2004 (1 article)
Oecologia, Early Edition, 2004 Sep 22 (1 article)
Otol Neurotol, Volume 25, Issue 5, 2004 (1 article)
Plant Physiol, Early Edition, 27-Aug-2004 (1 article)
Proc Natl Acad Sci U S A, Early Edition, 3-Sep-2004 (1 article)
Proc Natl Acad Sci U S A, Volume 101, Issue 37, 2004 (1 article)
Proteomics, Volume 4, Issue 10, 2004 (44 articles)
Rapid Commun Mass Spectrom, Volume 18, Issues 18+19+20, 2004 (6 articles)
Semin Thromb Hemost, Volume 30, Issue 4, 2004 (1 article)
Subcell Biochem, Volume 37, 2004 (1 article)
Trends Cardiovasc Med, Volume 14, Issue 6, 2004 (1 article)
Trends in Biotechnology, Volume 22, Issue 10, 2004 (1 article)
World J Gastroenterol, Volume 10, Issue 21, 2004 (1 article)

Disclaimer: The selection and categorisation reflect the views and understandings of contributors (i.e. SPS members).

Quick jumps to articles in: Bioinformatics (18) / Biological applications (30) / Biomedical and clinical applications (20) / Eukaryotic Cells And Tissues (4) / Prokaryotes (31) / Pharmacology and Toxicology (1) / Protein Array (7) / Protein Characterization - PTMs (20) / Quantitation (3) / Review (13) / Methodology (37) / Books (4) / Meeting (2) / Other (8) /

Bioinformatics

A software utility for creating interactive maps for 2D gel-based proteomics
Junyu Li, Sheng Liu, Travis Osterman, Yinong Zhang, Heather Coppage, Nathan Pedrick and Frank A. Witzmann
Analytical Biochemistry (2004) 332(1): 187-190

Data mining techniques for cancer detection using serum proteomic profiling.
Li L, Tang H, Wu Z, Gong J, Gruidl M, Zou J, Tockman M, Clark RA
Artif Intell Med (2004) 32(2): 71-83

Bioinformatics and cancer target discovery.
Desany B, Zhang Z
Drug Discov Today (2004) 9(18): 795-802

MetaProt: A Proteomics Metaclassification.
Kumar A
Medinfo (2004) 2004(CD): 1699

Assessment of protein spot components applying correspondence analysis for peptide mass fingerprint data
Alexander Krah, Ralf Wessel, Klaus-Peter Pleißner
PROTEOMICS (2004) 4(10): 2982-2986

Charge and Hydrophobicity Patterning along the Sequence Predicts the Folding Mechanism and Aggregation of Proteins: A Computational Approach
Joseph P. Zbilut, Alessandro Giuliani, Alfredo Colosimo, Mauro Colafranceschi, Norbert Marwan,^# Vladimir N. Uversky^{, ,} # #
JOURNAL OF PROTEOME RESEARCH Early Edition: published 10/08/2004

New approaches towards integrated proteomic databases and depositories
C Rohlff
Expert Review of Proteomics (2004) 1(3): 267-274

CEBS object model for systems biology data, SysBio-OM
Sandhya Xirasagar, Scott Gustafson, B. Alex Merrick, Kenneth B. Tomer, Stanley Stasiewicz, Denny D. Chan, Kenneth J. Yost, III, John R. Yates, III, Susan Sumner, Nianqing Xiao, and Michael D. Waters
Bioinformatics (2004) 20(13): 2004-2015

DNA microarray normalization methods can remove bias from differential protein expression analysis of 2D difference gel electrophoresis results
David P. Kreil, Natasha A. Karp, and Kathryn S. Lilley
Bioinformatics (2004) 20(13): 2026-2034

TIP: protein backtranslation aided by genetic algorithms
Andres Moreira and Alejandro Maass
Bioinformatics (2004) 20(13): 2148-2149

Automated interpretation of mass spectra of complex mixtures by matching of isotope peak distributions.
Fernandez-De-Cossio J, Gonzalez LJ, Satomi Y, Betancourt L, Ramos Y, Huerta V, Besada V, Padron G, Minamino N, Takao T
Rapid Commun Mass Spectrom (2004) 18(20): 2465

Short Communication - Presentation of differentially regulated proteins within a web-accessible proteome database system of microorganisms
Klaus-Peter Pleißner, Peter Schmelzer, Wolfgang Wehrl, Peter R. Jungblut
PROTEOMICS (2004) 4(10): 2987-2990

PEDRo: A database for storing, searching and disseminating experimental proteomics data.
Garwood K, McLaughlin T, Garwood C, Joens S, Morrison N, Taylor CF, Carroll K, Evans C, Whetton AD, Hart S, Stead D, Yin Z, Brown AJ, Hesketh A, Chater K, Hansson L, Mewissen M, Ghazal P, Howard J, Lilley KS, Gaskell SJ, Brass A, Hubbard SJ, Oliver SG, Paton NW
BMC Genomics (2004) 5(1): 68

Hierarchical learning architecture with automatic feature selection for multiclass protein fold classification.
Huang CD, Lin CT, Pal NR
IEEE Trans Nanobioscience (2003) 2(4): 221-32

Sequence optimization as an alternative to de novo analysis of tandem mass spectrometry data
Alejandro Heredia-Langner, William R. Cannon, Kenneth D. Jarman, and Kristin H. Jarman
Bioinformatics (2004) 20(14): 2296-2304

AliasServer: a web server to handle multiple aliases used to refer to proteins
Florian Iragne, Aurelien Barre, Nicolas Goffard, and Antoine de Daruvar
Bioinformatics (2004) 20(14): 2331-2332

DBParser: Web-Based Software for Shotgun Proteomic Data Analyses
Xiaoyu Yang, Vijay Dondeti, Rebecca Dezube, Dawn M. Maynard, Jonathan Epstein, Xiongfong Chen, Sanford P. Markey, and Jeffrey A. Kowalak
JOURNAL OF PROTEOME RESEARCH Early Edition: published 09/24/2004

Using chemometrics for navigating in the large data sets of genomics, proteomics, and metabonomics (gpm).
Eriksson L, Antti H, Gottfries J, Holmes E, Johansson E, Lindgren F, Long I, Lundstedt T, Trygg J, Wold S
Anal Bioanal Chem Early Edition: published 2004 Sep 22

Biological applications

Proteomic basis for the possible use of lymphocytes for metabolic screenings.
Oh JE, Krapfenbauer K, Lubec G
Amino Acids Early Edition: published 4-Oct-2004

Temporal analysis of phosphotyrosine-dependent signaling networks by quantitative proteomics.
Blagoev B, Ong SE, Kratchmarova I, Mann M
Nat Biotechnol (2004) 22(9): 1139-45

Proteomic analysis of cellular signaling
WG Chen & FM White
Expert Review of Proteomics (2004) 1(3): 343-354

High-throughput capillary electrophoresis frontal analysis method for the study of drug interactions with human serum albumin at near-physiological conditions
Juan J. Martínez-Pla, María A. Martínez-Gómez, Yolanda Martín-Biosca, Salvador Sagrado, Rosa M. Villanueva-Camañas, Maria J. Medina-Hernández
ELECTROPHORESIS (2004) 25(18-19): 3176-3185

Tissue microarrays: fast-tracking protein expression at the cellular level
A Warford
Expert Review of Proteomics (2004) 1(3): 283-292

Large-scale proteomic analysis of membrane proteins
M Ahram & DL Springer
Expert Review of Proteomics (2004) 1(3): 293-302

Redox proteomics: identification and functional role of glutathionylated proteins
M Fratelli, E Gianazza & P Ghezzi
Expert Review of Proteomics (2004) 1(3): 365-376

Genome and proteome analysis of Chlamydia
Brian B. S. Vandahl, Svend Birkelund, Gunna Christiansen
PROTEOMICS (2004) 4(10): 2831-2842

Helicobacter pylori vaccine development based on combined subproteome analysis
Dirk Bumann, Peter R. Jungblut, Thomas F. Meyer
PROTEOMICS (2004) 4(10): 2843-2848

A comprehensive proteome map of growing Bacillus subtilis cells
Christine Eymann, Annette Dreisbach, Dirk Albrecht, Jörg Bernhardt, Dörte Becher, Sandy Gentner, Le Thi Tam, Knut Büttner, Gerrit Buurman, Christian Scharf, Simone Venz, Uwe Völker, Michael Hecker
PROTEOMICS (2004) 4(10): 2849-2876

Proteomic analysis of hyperdynamic mouse hearts with enhanced sarcoplasmic reticulum calcium cycling.
Chu G, Kerr JP, Mitton B, Egnaczyk GF, Vazquez JA, Shen M, Kilby GW, Stevenson TI, Maggio JE, Vockley J, Rapundalo ST, Kranias EG
FASEB J Early Edition: published 9-Sep-2004

Proteome analysis of Neisseria meningitidis serogroup A
Giulia Bernardini, Giovanni Renzone, Maurizio Comanducci, Roberta Mini, Simona Arena, Chiara D'Ambrosio, Stefania Bambini, Lorenza Trabalzini, Guido Grandi, Paola Martelli, Mark Achtman, Andrea Scaloni, Giulio Ratti, Annalisa Santucci
PROTEOMICS (2004) 4(10): 2893-2926

Continued proteomic analysis of Mycobacterium leprae subcellular fractions
Maria Angela M. Marques, Benjamin J. Espinosa, Erika K. Xavier da Silveira, Maria Cristina V. Pessolani, Alex Chapeaurouge, Jonas Perales, Karen M. Dobos, John T. Belisle, John S. Spencer, Patrick J. Brennan
PROTEOMICS (2004) 4(10): 2942-2953

The cell wall subproteome of Listeria monocytogenes
Jessica Schaumburg, Oliver Diekmann, Petra Hagendorff, Simone Bergmann, Manfred Rohde, Sven Hammerschmidt, Lothar Jänsch, Jürgen Wehland, Uwe Kärst
PROTEOMICS (2004) 4(10): 2991-3006

Low virulent strains of Candida albicans: Unravelling the antigens for a future vaccine
Elena Fernández-Arenas, Gloria Molero, César Nombela, Rosalía Diez-Orejas, Concha Gil
PROTEOMICS (2004) 4(10): 3007-3020

Comparative proteome analysis of cellular proteins extracted from highly virulent Francisella tularensis ssp. tularensis and less virulent F. tularensis ssp. holarctica and F. tularensis ssp. mediaasiatica
Martin Hubálek, Lenka Hernychová, Martin Brychta, Juraj Len?o, Jana Zechovská, Ji?í Stulík
PROTEOMICS (2004) 4(10): 3048-3060

Highly phosphorylated bacterial proteins
Ran Rosen, Dörte Becher, Knut Büttner, Dvora Biran, Michael Hecker, Eliora Z. Ron
PROTEOMICS (2004) 4(10): 3068-3077

A method for the rapid depletion of albumin and immunoglobulin from human plasma
Carrie Greenough, Rosalind E. Jenkins, Neil R. Kitteringham, Munir Pirmohamed, B. Kevin Park, Stephen R. Pennington
PROTEOMICS (2004) 4(10): 3107-3111

Lipid raft proteomics: Analysis of in-solution digest of sodium dodecyl sulfate-solubilized lipid raft proteins by liquid chromatography-matrix-assisted laser desorption/ionization tandem mass spectrometry
Nan Li, Andrew R. E. Shaw, Nan Zhang, Allan Mak, Liang Li
PROTEOMICS (2004) 4(10): 3156-3166

Proteins as biomarkers of oxidative/nitrosative stress in diseases: The contribution of redox proteomics.
Dalle-Donne I, Scaloni A, Giustarini D, Cavarra E, Tell G, Lungarella G, Colombo R, Rossi R, Milzani A
Mass Spectrom Rev Early Edition: published 06-Apr-2004

Characterization of anti-inflammatory compounds using transcriptomics, proteomics, and metabolomics in combination with multivariate data analysis.
Verhoeckx KC, Bijlsma S, Jespersen S, Ramaker R, Verheij ER, Witkamp RF, Van Der Greef J, Rodenburg RJ
Int Immunopharmacol (2004) 4(12): 1499-514

Application of proteomics to the study of platelet regulatory mechanisms.
Maguire PB, Moran N, Cagney G, Fitzgerald DJ
Trends Cardiovasc Med (2004) 14(6): 207-20

The synaptic vesicle proteome: A comparative study in membrane protein identification
Holly D. Coughenour, Reggie S. Spaulding, Charles M. Thompson
PROTEOMICS (2004) 4(10): 3141-3155

The secretome of the plant pathogenic bacterium Erwinia chrysanthemi
Nasrin Kazemi-Pour, Guy Condemine, Nicole Hugouvieux-Cotte-Pattat
PROTEOMICS (2004) 4(10): 3177-3186

Proteomic study of a model causative agent of harmful algal blooms, Prorocentrum triestinum II: The use of differentially expressed protein profiles under different growth phases and growth conditions for bloom prediction
Leo Lai Chan, Ivor John Hodgkiss, Jennifer Man-Fan Wan, John Hon-Kei Lum, Abby Sin-Chi Mak, Wai-Hung Sit, Samuel Chun-Lap Lo
PROTEOMICS (2004) 4(10): 3214-3226

Proteomic analysis of resistance mediated by Rcm 2.0 and Rcm 5.1, two loci controlling resistance to bacterial canker of tomato.
Coaker GL, Willard B, Kinter M, Stockinger EJ, Francis DM
Mol Plant Microbe Interact (2004) 17(9): 1019-28

The serum proteome of Equus caballus
Ingrid Miller, Arno Friedlein, George Tsangaris, Antony Maris, Michael Fountoulakis, Manfred Gemeiner
PROTEOMICS (2004) 4(10): 3227-3234

A proteomic fingerprint of dissolved organic carbon and of soil particles.
Schulze WX, Gleixner G, Kaiser K, Guggenberger G, Mann M, Schulze ED
Oecologia Early Edition: published 2004 Sep 22

Identification and Verification of Novel Rodent Postsynaptic Density Proteins
Bryen A. Jordan, Brian D. Fernholz, Muriel Boussac, Chongfeng Xu, Gabriela Grigorean, Edward B. Ziff, and Thomas A. Neubert
Mol Cell Proteomics (2004) 3(9): 857-871

Quantitative Analysis of Liver Protein Expression During Hibernation in the Golden-mantled Ground Squirrel
L. Elaine Epperson, Timothy A. Dahl, and Sandra L. Martin
Mol Cell Proteomics (2004) 3(9): 920-933

Biomedical and clinical applications

Two-Dimensional Liquid Chromatography Study of the Human Whole Saliva Proteome
Phillip A. Wilmarth, Michael A. Riviere, D. Leif Rustvold, Theresa E. Madden, and Larry L. David
JOURNAL OF PROTEOME RESEARCH Early Edition: published 09/17/2004

Antigens up the Nose: Identification of Putative Biomarkers for Nasal Tolerance Induction Functional Studies Combined with Proteomics
Annemieke M. Boots, Peter D. Verhaert, Rezie J. te Poele, Christina J. Coenen-de Roo, Jenny Cleven, and Ebo S. Bos
JOURNAL OF PROTEOME RESEARCH Early Edition: published 09/17/2004

Comprehensive Proteomic Analysis of Human Pancreatic Juice
Mads Gr nborg, Jakob Bunkenborg, Troels Zakarias Kristiansen, Charles J. Yeo, Ralph H. Hruban, Anirban Maitra, Akhilesh Pandey
JOURNAL OF PROTEOME RESEARCH Early Edition: published 09/17/2004

Proteomic analysis finds different myocardial protective mechanisms for median nerve stimulation by electroacupuncture and by local somatothermal stimulation.
Tsou MT, Ho JY, Lin CH, Chiu JH
Int J Mol Med (2004) 14(1): 553-563

SERUM PROTEOMIC PROFILING CAN DISCRIMINATE PROSTATE CANCER FROM BENIGN PROSTATES IN MEN WITH TOTAL PROSTATE SPECIFIC ANTIGEN LEVELS BETWEEN 2.5 AND 15.0 NG/ML.
Ornstein DK, Rayford W, Fusaro VA, Conrads TP, Ross SJ, Hitt BA, Wiggins WW, Veenstra TD, Liotta LA, Petricoin EF 3rd
J Urol (2004) 172(4, Part 1 Of 2): 1302-1305

Proteomic characterization of isolated retinal pigment epithelium microvilli.
Bonilha VL, Bhattacharya SK, West KA, Sun J, Crabb JW, Rayborn ME, Hollyfield JG
Mol Cell Proteomics Early Edition: published 14-Sep-2004

Proteomic identification of brainstem cytosolic proteins in a neuropathic pain model.
Alzate O, Hussain SR, Goettl VM, Tewari AK, Madiai F, Stephens RL Jr, Hackshaw KV
Brain Res Mol Brain Res (2004) 128(2): 193-200

Multidimensional protein profiling technology and its application to human plasma proteome.
Fujii K, Nakano T, Kawamura T, Usui F, Bando Y, Wang R, Nishimura T
J Proteome Res (2004) 3(4): 712-8

Capillary electrophoresis studies on the aggregation process of ?-amyloid 1-42 and 1-40 peptides
Stefania Sabella, Milena Quaglia, Cristina Lanni, Marco Racchi, Stefano Govoni, Gabriele Caccialanza, Alberto Calligaro, Vittorio Bellotti, Ersilia De Lorenzi
ELECTROPHORESIS (2004) 25(18-19): 3186-3194

Microscale fractionation facilitates detection of differentially expressed proteins in Alzheimer's disease brain samples (vol. 25, Issue 15, pp. 2557-2563)
Mary F. Lopez, Alvydas Mikulskis, Eva Golenko, Simon Melov, David Bennett, Alex Cherkasskiy, Scott Kuzdzal, Susan Kramer, Dan Sissors
ELECTROPHORESIS (2004) 25(18-19): 3322

The role of analytical sciences in medical systems biology
Jan van der Greef, Paul Stroobant and Rob van der Heijden
Current Opinion in Chemical Biology (2004) 8(5): 559-565

Comparative proteomic analysis of GS-NS0 murine myeloma cell lines with varying recombinant monoclonal antibody production rate.
Smales CM, Dinnis DM, Stansfield SH, Alete D, Sage EA, Birch JR, Racher AJ, Marshall CT, James DC
Biotechnol Bioeng Early Edition: published 30-Sep-2004

An integrated approach to the detection of colorectal cancer utilizing proteomics and bioinformatics.
Yu JK, Chen YD, Zheng S
World J Gastroenterol (2004) 10(21): 3127-31

Clinical proteomics: a question of technology.
Kolch W, Mischak H, Chalmers MJ, Pitt A, Marshall AG
Rapid Commun Mass Spectrom (2004) 18(19): 2365

Proteomic analysis of mitochondrial proteins in cardiomyocytes from chronic stressed rat
Xiao-Hua Liu, Ling-Jia Qian, Jing-Bo Gong, Jing Shen, Xue-Min Zhang, Xiao-Hong Qian
PROTEOMICS (2004) 4(10): 3167-3176

Molecular classification of liver cirrhosis in a rat model by proteomics and bioinformatics
Xiu-Qin Xu, Chon K. Leow, Xin Lu, Xuegong Zhang, Jun S. Liu, Wing-Hung Wong, Arndt Asperger, Sören Deininger, Hon-chiu Eastwood Leung
PROTEOMICS (2004) 4(10): 3235-3245

A proteomic approach to cisplatin resistance in the cervix squamous cell carcinoma cell line A431
Annalisa Castagna, Paolo Antonioli, Hubert Astner, Mahmoud Hamdan, Sabina Carla Righetti, Paola Perego, Franco Zunino, Pier Giorgio Righetti
PROTEOMICS (2004) 4(10): 3246-3267

A novel proteomic coculture model of prostate cancer cell growth
Dmitri Dvorzhinski, Anu Thalasila, Paul E. Thomas, Deirdre Nelson, Hong Li, Eileen White, Robert S. DiPaola
PROTEOMICS (2004) 4(10): 3268-3275

Diverse proteomic alterations in gastric adenocarcinoma
Qing-Ye He, Yim Hing Cheung, Suet Yi Leung, Siu Tsan Yuen, Kent-Man Chu, Jen-Fu Chiu
PROTEOMICS (2004) 4(10): 3276-3287

Global Analysis of the Cortical Neuron Proteome
Li-Rong Yu, Thomas P. Conrads, Takuma Uo, Yoshito Kinoshita, Richard S. Morrison, David A. Lucas, King C. Chan, Josip Blonder, Haleem J. Issaq, and Timothy D. Veenstra
Mol Cell Proteomics (2004) 3(9): 896-907

Eukaryotic Cells And Tissues

Enhanced Photosynthesis and Redox Energy Production Contribute to Salinity Tolerance in Dunaliella as Revealed by Homology-Based Proteomics.
Liska AJ, Shevchenko A, Pick U, Katz A
Plant Physiol Early Edition: published 27-Aug-2004

Analyzing the platelet proteome.
Garcia A, Zitzmann N, Watson SP
Semin Thromb Hemost (2004) 30(4): 485-9

Proteomic identification of collagens and related proteins in human fibroblasts.
Oh JE, Krapfenbauer K, Lubec G
Amino Acids Early Edition: published 4-Oct-2004

A proteomic approach to identification of transmembrane proteins and membrane-anchored proteins of Arabidopsis thaliana by peptide sequencing.
Sazuka T, Keta S, Shiratake K, Yamaki S, Shibata D
DNA Res (2004) 11(2): 101-13

Prokaryotes

Protein identification and tracking in two-dimensional electrophoretic gels by minimal protein identifiers
Jens Mattow, Frank Schmidt, Wolfgang Höhenwarter, Frank Siejak, Ulrich E. Schaible, Stefan H.E. Kaufmann
PROTEOMICS (2004) 4(10): 2927-2941

Continued proteomic analysis of Mycobacterium leprae subcellular fractions
Maria Angela M. Marques, Benjamin J. Espinosa, Erika K. Xavier da Silveira, Maria Cristina V. Pessolani, Alex Chapeaurouge, Jonas Perales, Karen M. Dobos, John T. Belisle, John S. Spencer, Patrick J. Brennan
PROTEOMICS (2004) 4(10): 2942-2953

CFP10 discriminates between nonacetylated and acetylated ESAT-6 of Mycobacterium tuberculosis by differential interaction
Limei Meng Okkels, Eva-Christina Müller, Monika Schmid, Ida Rosenkrands, Stefan H. E. Kaufmann, Peter Andersen, Peter R. Jungblut
PROTEOMICS (2004) 4(10): 2954-2960

The Helicobacter pylori CagA protein induces tyrosine dephosphorylation of ezrin
Matthias Selbach, Stefan Moese, Steffen Backert, Peter R. Jungblut, Thomas F. Meyer
PROTEOMICS (2004) 4(10): 2961-2968

Action and Reaction: Chlamydophila pneumoniae proteome alteration in a persistent infection induced by iron deficiency
Wolfgang Wehrl, Thomas F. Meyer, Peter R. Jungblut, Eva-Christina Müller, Agnes J. Szczepek
PROTEOMICS (2004) 4(10): 2969-2981

The cell wall subproteome of Listeria monocytogenes
Jessica Schaumburg, Oliver Diekmann, Petra Hagendorff, Simone Bergmann, Manfred Rohde, Sven Hammerschmidt, Lothar Jänsch, Jürgen Wehland, Uwe Kärst
PROTEOMICS (2004) 4(10): 2991-3006

Low virulent strains of Candida albicans: Unravelling the antigens for a future vaccine
Elena Fernández-Arenas, Gloria Molero, César Nombela, Rosalía Diez-Orejas, Concha Gil
PROTEOMICS (2004) 4(10): 3007-3020

Proteomic analysis of the sarcosine-insoluble outer membrane fraction of the bacterial pathogen Bartonella henselae
Thomas A. Rhomberg, Olof Karlberg, Thierry Mini, Ursula Zimny-Arndt, Ulrika Wickenberg, Marlene Röttgen, Peter R. Jungblut, Paul Jenö, Siv G. E. Andersson, Christoph Dehio
PROTEOMICS (2004) 4(10): 3021-3033

The influence of agr and ?B in growth phase dependent regulation of virulence factors in Staphylococcus aureus
Anne-Kathrin Ziebandt, Dörte Becher, Knut Ohlsen, Jörg Hacker, Michael Hecker, Susanne Engelmann
PROTEOMICS (2004) 4(10): 3034-3047

Comparative proteome analysis of cellular proteins extracted from highly virulent Francisella tularensis ssp. tularensis and less virulent F. tularensis ssp. holarctica and F. tularensis ssp. mediaasiatica
Martin Hubálek, Lenka Hernychová, Martin Brychta, Juraj Len?o, Jana Zechovská, Ji?í Stulík
PROTEOMICS (2004) 4(10): 3048-3060

Proteome comparison of Vibrio cholerae cultured in aerobic and anaerobic conditions
Biao Kan, Hajar Habibi, Monika Schmid, Weili Liang, Ruibai Wang, Duochun Wang, Peter R. Jungblut
PROTEOMICS (2004) 4(10): 3061-3067

Induction of Mycobacterium avium proteins upon infection of human macrophages
Lara Brunori, Federico Giannoni, Luca Bini, Sabrina Liberatori, Cristiane Frota, Peter Jenner, Ove Fredrik Thoresen, Graziella Orefici, Lanfranco Fattorini
PROTEOMICS (2004) 4(10): 3078-3083

Proteomics-based identification of novel Candida albicans antigens for diagnosis of systemic candidiasis in patients with underlying hematological malignancies
Aida Pitarch, Joaquín Abian, Montserrat Carrascal, Miguel Sánchez, César Nombela, Concha Gil
PROTEOMICS (2004) 4(10): 3084-3106

Genomic and proteomic adaptations to growth at high temperature.
Hickey DA, Singer GA
Genome Biol (2004) 5(10): 117

Two-dimensional electrophoresis database of Listeria monocytogenes EGDe proteome and proteomic analysis of mid-log and stationary growth phase cells
Patrice Folio, Patrick Chavant, Ingrid Chafsey, Abdel Belkorchia, Christophe Chambon, Michel Hébraud
PROTEOMICS (2004) 4(10): 3187-3201

Critical aspects of analysis of Micrococcus luteus, Neisseria cinerea, and Pseudomonas fluorescens by means of capillary electrophoresis
Verena Hoerr, August Stich, Ulrike Holzgrabe
ELECTROPHORESIS (2004) 25(18-19): 3132-3138

Comparative Proteomic Analysis of Extracellular Proteins of Enterohemorrhagic and Enteropathogenic Escherichia coli Strains and Their ihf and ler Mutants.
Li M, Rosenshine I, Tung SL, Wang XH, Friedberg D, Hew CL, Leung KY
Appl Environ Microbiol (2004) 70(9): 5274-82

Determination of the bacterial pathogen Edwardsiella tarda in fish species by capillary electrophoresis with blue light-emitting diode-induced fluorescence
Lijun Yu, Lingling Yuan, Huatao Feng, Sam Fong Yau Li
ELECTROPHORESIS (2004) 25(18-19): 3139-3144

Analysis of insecticidal proteins from Bacillus thuringiensis and recombinant Escherichia coli by capillary electrokinetic chromatography
John H. T. Luong, Keith B. Male, Alberto Mazza, Luke Masson, Roland Brousseau
ELECTROPHORESIS (2004) 25(18-19): 3292-3299

Purification of the Escherichia coli K5 capsular polysaccharide and use of high-performance capillary electrophoresis to qualitative and quantitative monitor the process
Nicola Volpi
ELECTROPHORESIS (2004) 25(18-19): 3307-3312

Quantitative proteomic analysis of metabolic regulation by copper ions in methylococcus capsulatus (Bath).
Kao WC, Chen YR, Yi EC, Lee H, Tian Q, Wu KM, Tsai SF, Yu SS, Chen YJ, Aebersold R, Chan SI
J Biol Chem Early Edition: published 22-Sep-2004

A Proteomic Approach to Study msDNA Function in Escherichia coli.
Jeong MA, Lim D
J Microbiol (2004) 42(3): 200-4

Proteomic Profiling of Intact Mycobacteria by Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry.
Hettick JM, Kashon ML, Simpson JP, Siegel PD, Mazurek GH, Weissman DN
Anal Chem (2004) 76(19): 5769-5776

Genomic and proteomic analysis of thirty-nine structural proteins of shrimp white spot syndrome virus.
Tsai JM, Wang HC, Leu JH, Hsiao HH, Wang AH, Kou GH, Lo CF
J Virol (2004) 78(20): 11360-70

Identification of Proteins in Human Cytomegalovirus (HCMV) Particles: the HCMV Proteome.
Varnum SM, Streblow DN, Monroe ME, Smith P, Auberry KJ, Pasa-Tolic L, Wang D, Camp DG 2nd, Rodland K, Wiley S, Britt W, Shenk T, Smith RD, Nelson JA
J Virol (2004) 78(20): 10960-6

Proteomics of microbial pathogens
Peter R. Jungblut, Michael Hecker
PROTEOMICS (2004) 4(10): 2829-2830

Genome and proteome analysis of Chlamydia
Brian B. S. Vandahl, Svend Birkelund, Gunna Christiansen
PROTEOMICS (2004) 4(10): 2831-2842

Helicobacter pylori vaccine development based on combined subproteome analysis
Dirk Bumann, Peter R. Jungblut, Thomas F. Meyer
PROTEOMICS (2004) 4(10): 2843-2848

A comprehensive proteome map of growing Bacillus subtilis cells
Christine Eymann, Annette Dreisbach, Dirk Albrecht, Jörg Bernhardt, Dörte Becher, Sandy Gentner, Le Thi Tam, Knut Büttner, Gerrit Buurman, Christian Scharf, Simone Venz, Uwe Völker, Michael Hecker
PROTEOMICS (2004) 4(10): 2849-2876

A targeted proteomics approach to the rapid identification of bacterial cell mixtures by matrix-assisted laser desorption/ionization mass spectrometry
Bettina Warscheid, Catherine Fenselau
PROTEOMICS (2004) 4(10): 2877-2892

Proteome analysis of Neisseria meningitidis serogroup A
Giulia Bernardini, Giovanni Renzone, Maurizio Comanducci, Roberta Mini, Simona Arena, Chiara D'Ambrosio, Stefania Bambini, Lorenza Trabalzini, Guido Grandi, Paola Martelli, Mark Achtman, Andrea Scaloni, Giulio Ratti, Annalisa Santucci
PROTEOMICS (2004) 4(10): 2893-2926

Pharmacology and Toxicology

Kinase selectivity profiling by inhibitor affinity chromatography
B Valsasina, HM Kalisz & A Isacchi
Expert Review of Proteomics (2004) 1(3): 303-315

Protein Array

Integrated Protein Microchip Assay with Dual Fluorescent- and MALDI Read-Out
D. Finnskog, A. Ressine, T. Laurell, and G. Marko-Varga
JOURNAL OF PROTEOME RESEARCH Early Edition: published 09/17/2004

AMANDA (Array MANagement Database): A Tool for Managing Microarray Experiments Data and Clinical Sample Annotation.
Lopez-Campos GH, Martin-Sanchez F
Medinfo (2004) 2004(CD): 1728

Protein arrays: methods and protocols
T Joos
Expert Review of Proteomics (2004) 1(3): 261-262

Tissue microarrays: fast-tracking protein expression at the cellular level
A Warford
Expert Review of Proteomics (2004) 1(3): 283-292

High-throughput proteomics using antibody microarrays
C Wingren & CAK Borrebaeck
Expert Review of Proteomics (2004) 1(3): 355-364

Rapid protein separations in ultra-short microchannels: microchip sodium dodecyl sulfate-polyacrylamide gel electrophoresis and isoelectric focusing
Jongyoon Han and Anup K. Singh
J Chromatogr A (2004) 1049(1-2): 205-209

Antibody arrays prepared by cutinase-mediated immobilization on self-assembled monolayers.
Kwon Y, Han Z, Karatan E, Mrksich M, Kay BK
Anal Chem (2004) 76(19): 5713-20

Protein Characterization / PTMs

Purification and Identification of Protein-Tyrosine Kinase-binding Proteins Using Synthetic Phosphopeptides as Affinity Reagents
Kevin Wilhelmsen, Jeremy Copp, Gary Glenn, Ross C. Hoffman, Philip Tucker, and Peter van der Geer
Mol Cell Proteomics (2004) 3(9): 887-895

An Improved Model for Prediction of Retention Times of Tryptic Peptides in Ion Pair Reversed-phase HPLC: Its Application to Protein Peptide Mapping by Off-Line HPLC-MALDI MS
O.V. Krokhin, R. Craig, V. Spicer, W. Ens, K. G. Standing, R. C. Beavis, and J. A. Wilkins
Mol Cell Proteomics (2004) 3(9): 908-919

A method for proteomic identification of membrane-bound proteins containing Asn-linked oligosaccharides
Xiaolian Fan, Yi-Min She, Rick D. Bagshaw, John W. Callahan, Harry Schachter and Don J. Mahuran
Analytical Biochemistry (2004) 332(1): 178-186

Determining cysteine oxidation status using differential alkylation
Birgit Schilling, Chris B. Yoo, Christopher J. Collins and Bradford W. Gibson
International Journal of Mass Spectrometry (2004) 236(1-3): 117-127

Phosphoproteomics finds its timing.
Johnson SA, Hunter T
Nat Biotechnol (2004) 22(9): 1093-4

Highly phosphorylated bacterial proteins
Ran Rosen, Dörte Becher, Knut Büttner, Dvora Biran, Michael Hecker, Eliora Z. Ron
PROTEOMICS (2004) 4(10): 3068-3077

Studies on peptide acetylation for stable-isotope labeling after 1-D PAGE separation in quantitative proteomics
Yanling Yu, Jiefeng Cui, Xiaoyan Wang, Yinkun Liu, Pengyuan Yang
PROTEOMICS (2004) 4(10): 3112-3120

Characterization of Phosphorylation Sites on Histone H1 Isoforms by Tandem Mass Spectrometry
Benjamin A. Garcia, Scott A. Busby, Cynthia M. Barber, C. David Allis, and Donald F. Hunt
JOURNAL OF PROTEOME RESEARCH Early Edition: published 10/08/2004

Lectin affinity as an approach to the proteomic analysis of membrane glycoproteins.
Ghosh D, Krokhin O, Antonovici M, Ens W, Standing KG, Beavis RC, Wilkins JA
J Proteome Res (2004) 3(4): 841-50

Proteolysis and mass spectrometric analysis of an integral membrane: aquaporin 0.
Han J, Schey KL
J Proteome Res (2004) 3(4): 807-12

Nanocrystallography: an emerging technology for structural proteomics
C Nicolini & E Pechkova
Expert Review of Proteomics (2004) 1(3): 253-256

Large-scale proteomic analysis of membrane proteins
M Ahram & DL Springer
Expert Review of Proteomics (2004) 1(3): 293-302

Quantitative methods for the analysis of protein phosphorylation in drug development
DM Olive
Expert Review of Proteomics (2004) 1(3): 327-341

Redox proteomics: identification and functional role of glutathionylated proteins
M Fratelli, E Gianazza & P Ghezzi
Expert Review of Proteomics (2004) 1(3): 365-376

Liquid chromatography MALDI MS/MS for membrane proteome analysis.
Zhang N, Li N, Li L
J Proteome Res (2004) 3(4): 719-27

Total serum protein N-glycome profiling on a capillary electrophoresis-microfluidics platform
Nico Callewaert, Roland Contreras, Luba Mitnik-Gankin, Loucinda Carey, Paul Matsudaira, Daniel Ehrlich
ELECTROPHORESIS (2004) 25(18-19): 3128-3131

Characterizing complex peptide mixtures using a multi-dimensional liquid chromatography-mass spectrometry system: Saccharomyces cerevisiae as a model system
Dawn M. Maynard, Junichi Masuda, Xiaoyu Yang, Jeffrey A. Kowalak and Sanford P. Markey
J Chromatogr B (2004) 810(1): 69-76

Site-specific N-glycosylation analysis: matrix-assisted laser desorption/ionization quadrupole-quadrupole time-of-flight tandem mass spectral signatures for recognition and identification of glycopeptides.
Krokhin O, Ens W, Standing KG, Wilkins J, Perreault H
Rapid Commun Mass Spectrom (2004) 18(18): 2020

Membrane receptor mapping: the membrane topography of Fc(epsilon)RI signaling.
Oliver JM, Pfeiffer JR, Surviladze Z, Steinberg SL, Leiderman K, Sanders ML, Wofsy C, Zhang J, Fan H, Andrews N, Bunge S, Boyle TJ, Kotula P, Wilson BS
Subcell Biochem (2004) 37: 3-34

Characterization of Tetrahymena Histone H2B Variants and Posttranslational Populations by Electron Capture Dissociation (ECD) Fourier Transform Ion Cyclotron Mass Spectrometry (FT-ICR MS)
K. F. Medzihradszky, X. Zhang, R. J. Chalkley, S. Guan, M. A. McFarland, M. J. Chalmers, A. G. Marshall, R. L. Diaz, C. D. Allis, and A. L. Burlingame
Mol Cell Proteomics (2004) 3(9): 872-886

Quantitation

Mass spectrometry-based quantitative proteomics
AJR Heck & J Krijgsveld
Expert Review of Proteomics (2004) 1(3): 317-326

Global differential non-gel proteomics by quantitative and stable labeling of tryptic peptides with oxygen-18.
Staes A, Demol H, Van Damme J, Martens L, Vandekerckhove J, Gevaert K
J Proteome Res (2004) 3(4): 786-91

Accentuation of differentially expressed proteins using phage technology
R. Lee Suber, Vincent L. Flanders, Michael J. Campa and Jr., Edward F. Patz
Analytical Biochemistry (2004) 333(2): 351-357

Review

Interaction Networks of the Molecular Machines That Decode, Replicate, and Maintain the Integrity of the Human Genome
Benoit Coulombe, Celia Jeronimo, Marie-France Langelier, Marilena Cojocaru, and Dominique Bergeron
Mol Cell Proteomics (2004) 3(9): 851-856

Prospective highlights of functional skin proteomics.
Huang CM, Elmets CA, Van Kampen KR, DeSilva TS, Barnes S, Kim H, Tang DC
Mass Spectrom Rev Early Edition: published 16-Sep-2004

The abc's (and xyz's) of peptide sequencing.
Steen H, Mann M
Nat Rev Mol Cell Biol (2004) 5(9): 699-711

Proteomics on its way to study host-pathogen interaction in Candida albicans.
Rupp S
Curr Opin Microbiol (2004) 7(4): 330-5

Applications of silica-based monolithic HPLC columns.
Cabrera K
J Sep Sci (2004) 27(10-11): 843-52

Proteomics: A Primer for Otologists.
McGuire JF, Casado B
Otol Neurotol (2004) 25(5): 842-849

Proteomics by FTICR mass spectrometry: Top down and bottom up.
Bogdanov B, Smith RD
Mass Spectrom Rev Early Edition: published 30-Mar-2004

Intact-protein based sample preparation strategies for proteome analysis in combination with mass spectrometry.
Wang H, Hanash S
Mass Spectrom Rev Early Edition: published 30-Jun-2004

Proteome analysis in the study of lymphoma cells.
Joubert-Caron R, Caron M
Mass Spectrom Rev Early Edition: published 30-Jun-2004

Bacterial proteomics and its role in antibacterial drug discovery.
Brotz-Oesterhelt H, Bandow JE, Labischinski H
Mass Spectrom Rev Early Edition: published 29-Jul-2004

Recent advances in gel-based proteome profiling techniques.
Hu Y, Huang X, Chen GY, Yao SQ
Mol Biotechnol (2004) 28(1): 63-76

Does the genotype predict the phenotype? Evaluations of the hemostatic proteome.
Mann KG, Brummel-Ziedins K, Undas A, Butenas S
J Thromb Haemost (2004) 2(10): 1727-34

Integrated proteomics systems bring the pieces together.
Cottingham K
Anal Chem (2004) 76(17): 331A-335A

Methodology

High-Throughput, Fluorescence-Based Screening for Soluble Protein Expression
M. A. Coleman, V. H. Lao, B. W. Segelke, and P. T. Beernink
JOURNAL OF PROTEOME RESEARCH Early Edition: published 09/17/2004

Ion mobility mass spectrometry of proteins in a modified commercial mass spectrometer
K. Thalassinos, S.E. Slade, K.R. Jennings, J.H. Scrivens, K. Giles, J. Wildgoose, J. Hoyes, R.H. Bateman and M.T. Bowers
International Journal of Mass Spectrometry (2004) 236(1-3): 55-63

MALDI-MS analysis of peptides modified with photolabile arylazido groups
William Low, James Kang, Michael DiGruccio, Dean Kirby, Marilyn Perrin and Wolfgang H. Fischer
J Am Soc Mass Spectrom (2004) 15(8): 1156-1160

Towards a miniaturised system for dynamic field gradient focused separation of proteins
P Myers and K.D Bartle
J Chromatogr A (2004) 1044(1-2): 253-258

Improved peptide identification in proteomics by two consecutive stages of mass spectrometric fragmentation
Jesper V. Olsen and Matthias Mann
PNAS (2004) 101(37): 13417-13422

Electronic Western blot of matrix-assisted laser desorption/ionization mass spectrometric-identified polypeptides from parallel processed gel-separated proteins
Timothy K. Nadler, Barrie G. Wagenfeld, Yulin Huang, Robert J. Lotti, Kenneth C. Parker and George J. Vella
Analytical Biochemistry (2004) 332(2): 337-348

Principles and applications of Multidimensional Protein Identification Technology
AC Paoletti, B Zybailov & MP Washburn
Expert Review of Proteomics (2004) 1(3): 275-282

Selective Detection of Proteins in Mixtures Using Electrospray Ionization Mass Spectrometry: Influence of Instrumental Settings and Implications for Proteomics.
Vaidyanathan S, Kell DB, Goodacre R
Anal Chem (2004) 76(17): 5024-5032

Complementary Use of MALDI and ESI for the HPLC-MS/MS Analysis of DNA-Binding Proteins.
Stapels MD, Barofsky DF
Anal Chem (2004) 76(18): 5423-30

High-Throughput Comparative Proteome Analysis Using a Quantitative Cysteinyl-peptide Enrichment Technology.
Liu T, Qian WJ, Strittmatter EF, Camp DG 2nd, Anderson GA, Thrall BD, Smith RD
Anal Chem (2004) 76(18): 5345-53

Using immobilized metal affinity chromatography, two-dimensional electrophoresis and mass spectrometry to identify hepatocellular proteins with copper-binding ability.
Smith SD, She YM, Roberts EA, Sarkar B
J Proteome Res (2004) 3(4): 834-40

Capillary sieving electrophoresis-micellar electrokinetic chromatography fully automated two-dimensional capillary electrophoresis analysis of Deinococcus radiodurans protein homogenate
David A. Michels, Shen Hu, K. Amy Dambrowitz, Michael J. Eggertson, Kevin Lauterbach, Norman J. Dovichi
ELECTROPHORESIS (2004) 25(18-19): 3098-3105

Noncovalent labeling of myoglobin for capillary electrophoresis with laser-induced fluorescence detection by reconstitution with a fluorescent porphyrin
Ebbing P. de Jong, Jeremy E. Melanson, Charles A. Lucy
ELECTROPHORESIS (2004) 25(18-19): 3153-3162

Continuous on-line derivatization and selective separation of D-aspartic acid by a capillary electrophoresis system with a continuous sample introduction interface
Liuyin Fan, Yuqiao Cheng, Hongli Chen, Lihong Liu, Xingguo Chen, Zhide Hu
ELECTROPHORESIS (2004) 25(18-19): 3163-3167

Proline-coated column for the capillary electrochromatographic separation of amino acids by in-column derivatization
Chun-Chi Lin, Chuen-Ying Liu
ELECTROPHORESIS (2004) 25(18-19): 3216-3223

Investigation of the novel mixed-mode stationary phase for capillary electrochromatography. II. Separation of amino acids and peptides on sulfonated naphthalimido-modified silyl silica gel
Kaname Ohyama, Yumi Shirasawa, Mitsuhiro Wada, Naoya Kishikawa, Yoshihito Ohba, Kenichiro Nakashima, Naotaka Kuroda
ELECTROPHORESIS (2004) 25(18-19): 3224-3230

Applications and performance of a MALDI-ToF mass spectrometer with quadratic field reflectron technology.
Flensburg J, Haid D, Blomberg J, Bielawski J, Ivansson D
J Biochem Biophys Methods (2004) 60(3): 319-34

Instrumentation for advanced microseparations in pharmaceutical analysis and proteomics.
Rozing G, Nagele E, Horth P, Vollmer M, Moritz R, Glatz B, Gratzfeld-Husgen A
J Biochem Biophys Methods (2004) 60(3): 233-63

Disposable chromatography for a high-throughput nano-ESI/MS and nano-ESI/MS-MS platform.
Williams JG, Tomer KB
J Am Soc Mass Spectrom (2004) 15(9): 1333-40

Nanoflow LC/IMS-MS and LC/IMS-CID/MS of protein mixtures
Rena A. Sowell, Stormy L. Koeniger, Stephen J. Valentine, Myeong Hee Moon and David E. Clemmer
Journal of the American Society for Mass Spectrometry (2004) 15(9): 1341-1353

Disposable chromatography for a high-throughput nano-ESI/MS and nano-ESI/MS-MS platform
Jason G. Williams and Kenneth B. Tomer
Journal of the American Society for Mass Spectrometry (2004) 15(9): 1333-1340

Hydrophobic peptide tags as tools in bioseparation
Sara Fexby and Leif Bulow
Trends in Biotechnology (2004) 22(10): 511-516

Affinity depletion of albumin from human cerebrospinal fluid using Cibacron-blue-3G-A-derivatized photopatterned copolymer in a microfluidic device
Chen Li and Kelvin H. Lee
Analytical Biochemistry (2004) 333(2): 381-388

Affinity chromatography with monolithic capillary columns I. Polymethacrylate monoliths with immobilized mannan for the separation of mannose-binding proteins by capillary electrochromatography and nano-scale liquid chromatography.
Bedair M, El Rassi Z
J Chromatogr A (2004) 1044(1-2): 177-86

Improved peptide identification in proteomics by two consecutive stages of mass spectrometric fragmentation.
Olsen JV, Mann M
Proc Natl Acad Sci U S A Early Edition: published 3-Sep-2004

Efficient in-gel digestion procedure using 5-cyclohexyl-1-pentyl-beta-D-maltoside as an additive for gel-based membrane proteomics.
Katayama H, Tabata T, Ishihama Y, Sato T, Oda Y, Nagasu T
Rapid Commun Mass Spectrom (2004) 18(20): 2388

Dynamic identification of phosphopeptides using immobilized metal ion affinity chromatography enrichment, subsequent partial beta-elimination/chemical tagging and matrix-assisted laser desorption/ionization mass spectrometric analysis.
Ahn YH, Park EJ, Cho K, Kim JY, Ha SH, Ryu SH, Yoo JS
Rapid Commun Mass Spectrom (2004) 18(20): 2495

Negative ion graphitised carbon nano-liquid chromatography/mass spectrometry increases sensitivity for glycoprotein oligosaccharide analysis.
Karlsson NG, Wilson NL, Wirth HJ, Dawes P, Joshi H, Packer NH
Rapid Commun Mass Spectrom (2004) 18(19): 2282

Opportunities for nanotechnology-based innovation in tissue proteomics.
Geho DH, Lahar N, Ferrari M, Petricoin EF, Liotta LA
Biomed Microdevices (2004) 6(3): 231-9

Detection of phosphorylated peptides in proteomic analyses using microfluidic compact disk technology.
Hirschberg D, Jagerbrink T, Samskog J, Gustafsson M, Stahlberg M, Alvelius G, Husman B, Carlquist M, Jornvall H, Bergman T
Anal Chem (2004) 76(19): 5864-71

Measuring Seven Endogenous Ketolic Estrogens Simultaneously in Human Urine by High-Performance Liquid Chromatography-Mass Spectrometry.
Xu X, Keefer LK, Waterhouse DJ, Saavedra JE, Veenstra TD, Ziegler RG
Anal Chem (2004) 76(19): 5829-5836

Hiding behind hydrophobicity - transmembrane segments in mass spectrometry.
Eichacker LA, Granvogl B, Mirus O, Muller BC, Miess C, Schleiff E
J Biol Chem Early Edition: published 27-Sep-2004

A method for the rapid depletion of albumin and immunoglobulin from human plasma
Carrie Greenough, Rosalind E. Jenkins, Neil R. Kitteringham, Munir Pirmohamed, B. Kevin Park, Stephen R. Pennington
PROTEOMICS (2004) 4(10): 3107-3111

A simple and inexpensive approach to interfacing high-performance liquid chromatography and matrix-assisted laser desorption/ionization-time of flight-mass spectrometry
Kim Y. C. Fung, Srdjan Askovic, Franco Basile, Mark W. Duncan
PROTEOMICS (2004) 4(10): 3121-3127

DARTs: A DNA-based in vitro polypeptide display technology
Paul Figueiredo, Radclyffe L. Roberts, Eugene W. Nester
PROTEOMICS (2004) 4(10): 3128-3140

Rapid screening of highly efficient vaccine candidates by immunoproteomics
Zijun Chen, Bo Peng, Sanying Wang, Xuanxian Peng
PROTEOMICS (2004) 4(10): 3203-3213

A Facile Method for High-throughput Co-expression of Protein Pairs
Andrei Alexandrov, Marissa Vignali, Douglas J. LaCount, Erin Quartley,Christina de Vries, Daniela De Rosa, Julie Babulski, Sarah F. Mitchell, Lori W. Schoenfeld, Stanley Fields, Wim G. Hol, Mark E. Dumont, Eric M. Phizicky, and Elizabeth J. Grayhack
Mol Cell Proteomics (2004) 3(9): 934-938

Books

Protein arrays: methods and protocols
T Joos
Expert Review of Proteomics (2004) 1(3): 261-262

Book Reviews: Membrane Protein Protocols: Expression, Purification and Characterization. By Barry S. Selinsky (Editor)
Thierry Rabilloud
PROTEOMICS (2004) 4(10): 3288

Book Reviews: Digital Code of Life: How Bioinformatics is Revolutionizing Science, Medicine, and Business. By G. Moody
Frédérique Lisacek
PROTEOMICS (2004) 4(10): 3288-3289

Book Reviews: Life Sciences in the 21st Century. By Ehud Keinan, Israel Schechter and Michael Sela (Editors)
Jan A. Witkowski
PROTEOMICS (2004) 4(10): 3289-3290

[Back to TOP]

Meeting

British Society for Proteome Research (Meeting Report)
S Ghose
Expert Review of Proteomics (2004) 1(3): 263-265

Meetings Diary: Proteomics 10/2004
PROTEOMICS (2004) 4(10): 3291

[Back to TOP]

Other

Biologists launch 'open-source movement'.
Dennis C
Nature (2004) 431(7008): 494

Data hoarding is harming proteomics.
Noble WS
Nat Biotechnol (2004) 22(10): 1209

Reply to 'Data hoarding is harming proteomics'
Nat Biotechnol (2004) 22(10): 1209

Obituary: Professor Csaba Horváth (1930-2004)
András Guttman
ELECTROPHORESIS (2004) 25(18-19): 3067-3068

Editorial: Electrophoresis 18-19/2004
Ziad El Rassi
ELECTROPHORESIS (2004) 25(18-19): 3069

Miscellaneous: Electrophoresis 18-19/2004
ELECTROPHORESIS (2004) 25(18-19): 3322

Cover Picture: Proteomics 10/2004
PROTEOMICS (2004) 4(10): published 8 Oct 2004

New on the Market: Proteomics 10/2004
PROTEOMICS (2004) 4(10): 3292-3295

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