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  1. Content type: Article

    A proof-of-concept demonstration of the use of label-free quantitative glycoproteomics for biomarker discovery workflow is presented in this paper, using a mouse model for skin cancer as an example.

    Authors: Simon Letarte, Mi-Youn Brusniak, David Campbell, James Eddes, Christopher J. Kemp, Hollis Lau, Lukas Mueller, Alexander Schmidt, Paul Shannon, Karen S. Kelly-Spratt, Olga Vitek, Hui Zhang, Ruedi Aebersold and Julian D. Watts

    Citation: Clinical Proteomics 2008 4:9018

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  2. Content type: Article

    Glycans have unique characteristics that are significantly different from nucleic acids and proteins in terms of biosynthesis, structures, and functions. Moreover, their isomeric nature and the complex linkage...

    Authors: Richard K. T. Kam and Terence C. W. Poon

    Citation: Clinical Proteomics 2008 4:9017

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  3. Content type: Article

    With the rapid development of mass spectrometry-based technologies such as multiple reaction monitoring and heavy-isotope-labeled-peptide standards, quantitative analysis of biomarker proteins using mass spect...

    Authors: Yan Li, Lori J. Sokoll, Peter E. Barker, Hui Zhang and Daniel W. Chan

    Citation: Clinical Proteomics 2008 4:9011

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  4. Content type: Articles

    A novel approach of ion mobility tandem mass spectrometry (IMS-MS/MS) is applied to analysis of human glycourinome to obtain carbohydrate pattern data of congenital disorders of glycosylation patient. Overlapp...

    Authors: Sergey Y. Vakhrushev, James Langridge, Iain Campuzano, Chris Hughes and Jasna Peter-Katalinić

    Citation: Clinical Proteomics 2008 4:9010

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  5. Content type: Article

    Quantitative proteomics using tandem mass spectrometry is an attractive approach for identification of potential cancer biomarkers. Fractionation of complex tissue samples into subproteomes prior to mass spect...

    Authors: Raghothama Chaerkady, Paul J. Thuluvath, Min-Sik Kim, Anuradha Nalli, Perumal Vivekanandan, Jessica Simmers, Michael Torbenson and Akhilesh Pandey

    Citation: Clinical Proteomics 2008 4:9013

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  6. Content type: Articles

    Glycoproteomics is undergoing rapid development, largely as a result of advances in technologies for isolating glycoproteins and analyzing glycan structures. However, given the number and diversity of glycans,...

    Authors: David W. Ralin, Shane C. Dultz, Judd E. Silver, Jeffrey C. Travis, Majlinda Kullolli, William S. Hancock and Marina Hincapie

    Citation: Clinical Proteomics 2008 4:9007

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  7. Content type: Article

    Glycosylations range among the most common posttranslational modifications with an estimated 50% of all proteins supposed to be glycosylated. These modifications are required for essential cellular processes i...

    Authors: Urs Lewandrowski, Katharina Lohrig, René P. Zahedi, Dirk Wolters and Albert Sickmann

    Citation: Clinical Proteomics 2008 4:9006

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  8. Content type: Article

    This study established two-dimensional gel electrophoresis (2-DE) profiles for human well-differentiated laryngeal squamous cell carcinoma tissue and paired normal mucosa epithelia tissue and identified protei...

    Authors: Jian-rong Zhou, Zhong-xue Fu, Jie Li, Lian-zhi Wei and Jun-cai Li

    Citation: Clinical Proteomics 2008 3:9009

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  9. Content type: Article

    The collection of lung fluid using a suction catheter (s-Cath) and non-bronchoscopic bronchoalveolar lavage (mini-BAL) are two minimally invasive methods of sampling the distal airspaces in patients with the a...

    Authors: Dong W. Chang, Giuseppe Colucci, Tomas Vaisar, Trevor King, Shinichi Hayashi, Gustavo Matute-Bello, Roger Bumgarner, Jay Heinecke, Thomas R. Martin and Guido M. Domenighetti

    Citation: Clinical Proteomics 2008 3:9002

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  10. Content type: Article

    The aim of this study was to evaluate a multiple immunoaffinity protein depletion (multiple affinity removal system, MARS) pre-treatment strategy with subsequent two-dimensional polyacrylamide gel electrophore...

    Authors: Karen T. Oliva, Mustafa Ayhan, Gillian Barker, Nicole L. Dellios, Michael A. Quinn and Gregory E. Rice

    Citation: Clinical Proteomics 2007 3:9001

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  11. Content type: Article

    In recent years, differential analysis of proteins from human saliva, i.e., proteomic analysis, has received much attention mainly due to its unstressful sampling and its great potential for biomarker research...

    Authors: François Chevalier, Christophe Hirtz, Sandrine Chay, Frédéric Cuisinier, Nicolas Sommerer, Michel Rossignol and Dominique Deville de Périère

    Citation: Clinical Proteomics 2007 3:9000

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  12. Content type: Original Article

    The aim of this study was to examine the protein expression profiles of persistentChlamydia pneumoniae by two-dimensional polyacrylamide gel electrophoresis (2D PAGE) and surface-enhanced laser desorption ionizat...

    Authors: Sanghamitra Mukhopadhyay, Saeed A. Jortani, Roland Valdes, Christine Q. Simmons, Erin D. Sullivan, Richard D. Miller and James T. Summersgill

    Citation: Clinical Proteomics 2006 2:BF02752501

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  13. Content type: Original Article

    The proteins in blood were all first expressed as mRNAs from genes within cells. There are databases of human proteins that are known to be expressed as mRNA in human cells and tissues. Proteins identified fro...

    Authors: Peihong Zhu, Peter Bowden, Voitek Pendrak, Herbert Thiele, Du Zhang, Michael Siu, Eleftherios P. Diamandis and John Marshall

    Citation: Clinical Proteomics 2006 2:BF02752500

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  14. Content type: Original Article

    Fetal growth restriction (FGR) affects 3–5% of pregnancies and is associated with increased perinatal morbidity and mortality. Currently, there is no reliable biochemical test to differentiate a pathological F...

    Authors: Madhulika B. Gupta, Maxim D. Seferovic, Suya Liu, Robert J. Gratton, Amanda Doherty-Kirby, Gilles A. Lajoie and Victor K. M. Han

    Citation: Clinical Proteomics 2006 2:BF02752499

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  15. Content type: Original Article

    Epidemiological studies have shown that Asian populations display a lower incidence of hormone-dependant cancers, cardiovascular disease, osteoporosis, and menopausal ailments compared to Western societies. Av...

    Authors: Nicki Konstantakopoulos, Martin R. Larsen, Ian G. Campbell, Michael A. Quinn, Mark S. Baker, Harry M. Georgiou and Gregory E. Rice

    Citation: Clinical Proteomics 2006 2:BF02752498

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  16. Content type: Original Article

    In this manuscript, we compared serum profiles obtained with two related technologies, SELDI-TOF and Clinprot, using a single bioinformatic algorithm. These two approaches rely on mass spectrometry to detect p...

    Authors: Christelle Reynès, Stéphane Roche, Laurent Tiers, Robert Sabatier, Patrick Jouin, Nicolas Molinari and Sylvain Lehmann

    Citation: Clinical Proteomics 2006 2:BF02752497

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  17. Content type: Original Article

    Reversible phosphorylation is one of the most important posttranslational modifications of cellular proteins. Mass spectrometry is a widely used technique in the characterization of phosphorylated proteins and...

    Authors: Dongxia Wang, Philip A. Cole and Robert J. Cotter

    Citation: Clinical Proteomics 2006 2:BF02752496

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  18. Content type: Editorial

    The future of cancer diagnostics will be based on a panel of proteomic biomarkers. They could be used to detect cancer at an early stage, to predict and to direct therapies. Enzymes and related proteins are im...

    Authors: Daniel W. Chan and Shu-Ling Liang

    Citation: Clinical Proteomics 2006 2:BF02752495

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  19. Content type: Original Article

    Owing to its noninvasive collection, saliva is considered as a potent diagnostic fluid. The goal of this study was to investigate the modification of the salivary proteome occurring in type 1 diabetes to highl...

    Authors: Christophe Hirtz, François Chevalier, Nicolas Sommerer, Isabelle Raingeard, Jacques Bringer, Michel Rossignol and Dominique Deville de Périere

    Citation: Clinical Proteomics 2006 2:201117

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  20. Content type: Original Article

    Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF/MS) serves as a rapid and accurate means to determine masses of proteins independent of their shapes or interactions with...

    Authors: Glen L. Hortin and Alan T. Remaley

    Citation: Clinical Proteomics 2006 2:201103

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  21. Content type: Original Article

    Recent studies have evaluated proper acquisition and storage procedures for the use of serum or plasma for mass spectrometry (MS)-based proteomics. The present study examines the proteome stability of human ce...

    Authors: Srikanth Ranganathan, Anna Polshyna, Georgina Nicholl, James Lyons-Weiler and Robert Bowser

    Citation: Clinical Proteomics 2006 2:20191

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  22. Content type: Original Article

    There is a great desire to relate the patterns of endogenous peptides in blood to human disease and drug response. The best practices for the preparation of blood fluids for analysis are not clear and also rel...

    Authors: Declan Williams, Peihong Zhu, Peter Bowden, Catherine Stacey, Mike McDonell, Paul Kowalski, Jane Marie Kowalski, Ken Evans, Eleftherios P. Diamandis, K. W. Michael Siu and John Marshall

    Citation: Clinical Proteomics 2006 2:20167

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  23. Content type: Original Article

    Despite many years of research efforts and continued progress in the identification of urine markers for detection of bladder cancer, none of the markers described to date has been able to replace cystoscopy a...

    Authors: Pavel Gromov, Josè M. A. Moreira, Irina Gromova and Julio E. Celis

    Citation: Clinical Proteomics 2006 2:20145

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  24. Content type: Original Article

    Data mining application to proteomic data from mass spectrometry has gained much interest in recent years. Advances made in proteomics and mass spectrometry have resulted in considerable amount of data that ca...

    Authors: Asha Thomas, Georgia D. Tourassi, Adel S. Elmaghraby, Roland Valdes Jr. and Saeed A. Jortani

    Citation: Clinical Proteomics 2006 2:20113

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  25. Content type: Original Article

    Although most patients with early-stage nasopharyngeal carcinoma (NPC) can be cured by radiotherapy, there is a high recurrence rate in patients with advanced NPC. We attempted to identify proteomic patterns i...

    Authors: Terence C. W. Poon, Shuk Man Chow, Brigette B. Y. Ma, Edwin P. Hui and Anthony T. C. Chan

    Citation: Clinical Proteomics 2004 1:13104365

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  26. Content type: Original Article

    The identification of disease markers in human body fluids requires an extensive and thorough analysis of its protein constituents. In the present study, we have extended our analysis of the human cerebrospina...

    Authors: Giuseppina Maccarrone, Isabel Birg, Eva Malisch, Marcus C. Rosenhagen, Claudia Ditzen, John A. Chakel, Friedrich Mandel, Andreas Reimann, Can-Carlo Doertbudak, Katrin Haegler, Florian Holsboer and Christoph W. Turck

    Citation: Clinical Proteomics 2004 1:13104333

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  27. Content type: Original Article

    Hepatocellular carcinoma (HCC) and hepatoblastoma (HB) are malignancies of the liver with different etiologies, but the HB cell line HepG2 has been frequently used in various studies of HCC. In this study, we ...

    Authors: Ronald T. K. Pang, Terence C. W. Poon, Nathalie Wong, Paul B. S. Lai, Navy L. Y. Wong, Charles M. L. Chan, Jasmine W. S. Yu, Anthony T. C. Chan and Joseph J. Y. Sung

    Citation: Clinical Proteomics 2004 1:13104313

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  28. Content type: Original Article

    The evaluation of clinical tumor tissues is a valuable approach to discovering novel drug targets because of the direct relevance of human samples. We used activity-based proteomic profiling (ABPP) to study th...

    Authors: Melissa C. Zhang, Jiangyue Wu, Kristin G. Ardlie and Emme C. K. Lin

    Citation: Clinical Proteomics 2004 1:13104301

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  29. Content type: Original Article

    Here, we show a strategy for high-throughput antibody-based tissue profiling with the aim to create an atlas of protein expression patterns in normal human tissues and cancer tissues representing the 20 most p...

    Authors: Caroline Kampf, Ann-Catrin Andersson, Kenneth Wester, Erik Björling, Mathias Uhlen and Fredrik Ponten

    Citation: Clinical Proteomics 2004 1:13104285

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  30. Content type: Original Article

    The objective of this study was to examine the effects of heparan sulfate (HS) on factors involved in the remodeling of connective tissue observed in patients with fibrotic respiratory disorders such as asthma...

    Authors: Kristoffer Larsen, Johan Malmström, Ellen Tufvesson, György Marko-Varga and Gunilla Westergren-Thorsson

    Citation: Clinical Proteomics 2004 1:13104271

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  31. Content type: Original Article

    Matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry (MS) has been recently used to identify disease markers by directly profiling and quantifying the peptide/proteins in bi...

    Authors: Ronald T. K. Pang, Philip J. Johnson, Charles M. L. Chan, Ebenezer K. C. Kong, Anthony T. C. Chan, Joseph J. Y. Sung and Terence C. W. Poon

    Citation: Clinical Proteomics 2004 1:13104259

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  32. Content type: Original Article

    The use of proteomic analysis to discover proteins (previously identified or unknown) in a tissue sample is a valuable tool. However, there is a limit to the extent one can validate a discovery with any single...

    Authors: Stanley M. Belkowski, Raymond W. Colburn, Dennis J. Stone, Christopher R. Van Besien, Deborah Polkovitch, Patricia Andrade-Gordon and Michael R. D'Andrea

    Citation: Clinical Proteomics 2004 1:13104249

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  33. Content type: Molecular Targets

    Methotrexate has been a clinical agent used in cancer, immunosuppression, rheumatoid arthritis, and other highly proliferative diseases for many years, yet its underlying molecular mechanism of action in these...

    Authors: Jacek J. Slon-Usakiewicz, Andrew Pasternak, Neil Reid and Leticia M. Toledo-Sherman

    Citation: Clinical Proteomics 2004 1:13104227

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  34. Content type: Original Article

    In this study, proteomics was used to explore the antigenic proteins that are involved in cross-reactivity during serodiagnosis between Neospora caninum (N. caninum) and Toxoplasma gondii (T. gondii). Competitive...

    Authors: Yong-seung Shin, Eung-goo Lee, Gee-wook Shin, Young-rim Kim, Eun-young Lee, Jae-hoon Kim, Hwan Jang, Dae-yong Kim, Yong-hwan Kim, Gon-sup Kim, Myung-deuk Suh and Tae-sung Jung

    Citation: Clinical Proteomics 2004 1:235

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  35. Content type: Serum/Plasma Proteome

    Changes in serum proteins that signal histopathological states, such as cancer, are useful diagnostic and prognostic biomarkers. Unfortunately, the large dynamic concentration range of proteins in serum makes ...

    Authors: King C. Chan, David A. Lucas, Denise Hise, Carl F. Schaefer, Zhen Xiao, George M. Janini, Kenneth H. Buetow, Haleem J. Issaq, Timothy D. Veenstra and Thomas P. Conrads

    Citation: Clinical Proteomics 2004 1:12101

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  36. Content type: Brief Technical Report

    Protein microarrays have been recently employed for signal pathway profiling and high-throughput protein expression analysis. Reversephase arrays, where the array consists of immobilized analytes and lysates h...

    Authors: Valerie S. Calvert, Yihui Tang, Vince Boveia, Julie Wulfkuhle, Amy Schutz-Geschwender, D. Michael Olive, Lance A. Liotta and Emanuel F. Petricoin III

    Citation: Clinical Proteomics 2004 1:11081

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  37. Content type: Molecular Targets

    Methotrexate has been a clinical agent used in cancer, immunosuppression, rheumatoid arthritis and other highly proliferative diseases for many years, yet its underlying molecular mechanism of action in these ...

    Authors: Leticia M. Toledo-Sherman, Leroi Desouza, Christopher M. Hosfield, Linda Liao, Kelly Boutillier, Paul Taylor, Shane Climie, Linda McBroom-Cerajewski and Michael F. Moran

    Citation: Clinical Proteomics 2004 1:11045

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  38. Content type: Biomarker Discovery and Profiling

    Monitoring increased plasma unbound free fatty acid (FFAu) concentrations has been proposed as a biomarker for myocardial ischemia. In the current study, 30 acute coronary syndrome (ACS) patients presenting in th...

    Authors: Fred S. Apple, Alan M. Kleinfeld and Jesse Adams III

    Citation: Clinical Proteomics 2004 1:11041

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  39. Content type: Biomarker Discovery and Profiling

    The tissue specificity of creatine kinase (CK-MB) has been shown not to be absolute for the myocardium. Unexplained increases of plasma creatine kinase (CK-MB) occur in patients with skeletal muscle disease, c...

    Authors: Vincent Ricchiuti, Ellen M. Voss, Arthur Ney, Mark Odland and Fred S. Apple

    Citation: Clinical Proteomics 2004 1:11033

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  40. Content type: Serum/Plasma Proteome

    With increased interest in clinical proteomics—the comparative investigation of differential protein expression patterns for use in the diagnostic and prognostic assessment of disease states—the demand for tec...

    Authors: Urban A. Kiernan, Dobrin Nedelkov, Kemmons A. Tubbs, Eric E. Niederkofler and Randall W. Nelson

    Citation: Clinical Proteomics 2004 1:11007

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