PROTEOMICS - Clinical Applications

Copyright © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim

Cover image for Vol. 5 Issue 9‐10

October 2011

Volume 5, Issue 9-10

Pages 483–573

  1. Cover Picture

    1. Top of page
    2. Cover Picture
    3. Editorial Board
    4. Contents
    5. Editorial
    6. Research Articles
    7. Biomedical Abstracts
    1. Cover Picture: Proteomics – Clinical Applications 9–10/11

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190096

  2. Editorial Board

    1. Top of page
    2. Cover Picture
    3. Editorial Board
    4. Contents
    5. Editorial
    6. Research Articles
    7. Biomedical Abstracts
    1. Editorial Board: Proteomics – Clinical Applications

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190097

  3. Contents

    1. Top of page
    2. Cover Picture
    3. Editorial Board
    4. Contents
    5. Editorial
    6. Research Articles
    7. Biomedical Abstracts
    1. Contents – Proteomics – Clinical Applications 9–10'11

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190098

  4. Editorial

    1. Top of page
    2. Cover Picture
    3. Editorial Board
    4. Contents
    5. Editorial
    6. Research Articles
    7. Biomedical Abstracts
    1. Best Practice in Statistical Reporting (page 483)

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190063

  5. Research Articles

    1. Top of page
    2. Cover Picture
    3. Editorial Board
    4. Contents
    5. Editorial
    6. Research Articles
    7. Biomedical Abstracts
    1. Gel-based proteomics analysis of the heterogeneity of 20S proteasomes from four human pancreatic cancer cell lines (pages 484–492)

      Xinli Wang, Zhiyun Zhao, Yuanming Luo, Guoqiang Chen and Zhili Li

      Article first published online: 13 JUL 2011 | DOI: 10.1002/prca.201000149

    2. Assessment of high-throughput high-resolution MALDI-TOF-MS of urinary peptides for the detection of muscle-invasive bladder cancer (pages 493–503)

      Richard T. Bryan, Wenbin Wei, Neil J. Shimwell, Stuart I. Collins, Syed A. Hussain, Lucinda J. Billingham, Paul G. Murray, Nayneeta Deshmukh, Nicholas D. James, D. Michael A. Wallace, Philip J. Johnson, Maurice P. Zeegers, K. K. Cheng, Ashley Martin and Douglas G. Ward

      Article first published online: 6 SEP 2011 | DOI: 10.1002/prca.201100011

    3. Effect of storage temperature as a preanalytical variable on the lens crystallins protein quality for proteomic studies (pages 504–512)

      Soma Bhattacharjee, Sasmita Mohanty, Anil P. Sharma and Bimal P. Mohanty

      Article first published online: 7 SEP 2011 | DOI: 10.1002/prca.201100004

    4. Innate immunity proteins and a new truncated form of SPLUNC1 in nasopharyngeal aspirates from infants with respiratory syncytial virus infection (pages 513–522)

      Louise Fornander, Bijar Ghafouri, Erik Kihlström, Britt Åkerlind, Thomas Schön, Christer Tagesson and Mats Lindahl

      Article first published online: 6 SEP 2011 | DOI: 10.1002/prca.201100016

    5. A pilot study to investigate the potential of mass spectrometry profiling in the discovery of novel serum markers in chronic renal disease (pages 523–531)

      Douglas Thompson, Willem Develter, David A. Cairns, Jennifer H. Barrett, David A. Perkins, Anthea J. Stanley, Andrew Mooney, Peter J. Selby and Rosamonde E. Banks

      Article first published online: 7 SEP 2011 | DOI: 10.1002/prca.201100009

    6. An integrated proteomic approach to identifying circulating biomarkers in high-risk neuroblastoma and their potential in relapse monitoring (pages 532–541)

      Rachel A. Egler, Yiting Li, Tu Anh T. Dang, Tricia L. Peters, Eastwood Leung, Shixia Huang, Heidi V. Russell, Hao Liu and Tsz-Kwong Man

      Article first published online: 7 SEP 2011 | DOI: 10.1002/prca.201000089

  6. Biomedical Abstracts

    1. Top of page
    2. Cover Picture
    3. Editorial Board
    4. Contents
    5. Editorial
    6. Research Articles
    7. Biomedical Abstracts

    1. Proteomics

      Global identification of miR-373-regulated genes in breast cancer by quantitative proteomics (page 542)

      Guang-Rong Yan, Song-Hui Xu, Zi-Lu Tan, Langxia Liu and Qing-Yu He

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190064

      This article was originally published in Proteomics 2011, 11, 912–920, DOI 10.1002/pmic.201000539

    2. Proteomic profiling of cerebrospinal fluid identifies prostaglandin D2 synthase as a putative biomarker for pediatric medulloblastoma: A pediatric brain tumor consortium study (page 543)

      Meena U. Rajagopal, Yetrib Hathout, Tobey J. MacDonald, Mark W. Kieran, Sri Gururangan, Susan M. Blaney, Peter Phillips, Roger Packer, Heather Gordish-Dressman and Brian R. Rood

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190065

      This article was originally published in Proteomics 2011, 11, 935–943, DOI 10.1002/pmic.201000198

    3. A retinal proteomics-based study identifies αA-crystallin as a sex steroid-regulated protein (page 544)

      Claudia D'Anna, Caterina Cascio, Diego Cigna, Giacoma Galizzi, Irene Deidda, Laura Bianchi, Domenica Russo, Rosa Passantino, Luca Bini and Patrizia Guarneri

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190066

      This article was originally published in Proteomics 2011, 11, 1429–1448, DOI 10.1002/pmic.201000515

    4. GPDE: A biological proteomic database for biomarker discovery and evaluation (page 545)

      Johannes Griss, Verena Haudek-Prinz and Christopher Gerner

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190067

      This article was originally published in Proteomics 2011, 11, 1000–1004, DOI 10.1002/pmic.201000507

    5. Systematic quantification of peptides/proteins in urine using selected reaction monitoring (page 546)

      Nathalie Selevsek, Mariette Matondo, Marta Sanchez Carbayo, Ruedi Aebersold and Bruno Domon

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190068

      This article was originally published in Proteomics 2011, 11, 1135–1147, DOI 10.1002/pmic.201000599

    6. Toward a standardized urine proteome analysis methodology (page 547)

      Magali Court, Nathalie Selevsek, Mariette Matondo, Yves Allory, Jerome Garin, Christophe D. Masselon and Bruno Domon

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190069

      This article was originally published in Proteomics 2011, 11, 1160–1171, DOI 10.1002/pmic.201000566

    7. Proteome changes in rat plasma in response to sibutramine (page 548)

      Jung-Won Choi, Jeong In Joo, Dong Hyun Kim, Xia Wang, Tae Seok Oh, Duk Kwon Choi and Jong Won Yun

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190070

      This article was originally published in Proteomics 2011, 11, 1300–1312, DOI 10.1002/pmic.201000664

    8. Quantitative proteomics (2-D DIGE) reveals molecular strategies employed by Burkholderia cenocepacia to adapt to the airways of cystic fibrosis patients under antimicrobial therapy (page 549)

      Andreia Madeira, Pedro M. Santos, Carla P. Coutinho, Ana Pinto-de-Oliveira and Isabel Sá-Correia

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190071

      This article was originally published in Proteomics 2011, 11, 1313–1328, DOI 10.1002/pmic.201000457

    9. Mapping phosphoproteins in Neisseria meningitidis serogroup A (page 550)

      Giulia Bernardini, Marcella Laschi, Tommaso Serchi, Simona Arena, Chiara D'Ambrosio, Daniela Braconi, Andrea Scaloni and Annalisa Santucci

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190072

      This article was originally published in Proteomics 2011, 11, 1351–1358, DOI 10.1002/pmic.201000406

    10. A novel panel of protein biomarkers for predicting response to thalidomide-based therapy in newly diagnosed multiple myeloma patients (page 551)

      Rajesh Rajpal, Paul Dowling, Justine Meiller, Colin Clarke, William G. Murphy, Robert O'Connor, Malcolm Kell, Constantine Mitsiades, Paul Richardson, Kenneth C. Anderson, Martin Clynes and Peter O'Gorman

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190073

      This article was originally published in Proteomics 2011, 11, 1391–1402, DOI 10.1002/pmic.201000471

    11. Differential expression of adipose tissue proteins between obesity-susceptible and -resistant rats fed a high-fat diet (page 552)

      Jeong In Joo, Tae Seok Oh, Dong Hyun Kim, Duk Kwon Choi, Xia Wang, Jung-Won Choi and Jong Won Yun

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190074

      This article was originally published in Proteomics 2011, 11, 1429–1448, DOI 10.1002/pmic.201000515

    12. Identification of autoantibody biomarkers for primary Sjögren's syndrome using protein microarrays (page 553)

      Shen Hu, Arjan Vissink, Martha Arellano, Caroline Roozendaal, Hui Zhou, Cees G. M. Kallenberg and David T. Wong

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190075

      This article was originally published in Proteomics 2011, 11, 1499–1507, DOI 10.1002/pmic.201000206

    13. 2-D gel electrophoresis-based proteomic analysis reveals that ormeloxifen induces G0–G1 growth arrest and ERK-mediated apoptosis in chronic myeloid leukemia cells K562 (page 554)

      Pooja Pal, Jitendra K. Kanaujiya, Savita Lochab, Shashi B. Tripathi, Madan L. B. Bhatt, Pradhyumna K. Singh, Sabyasachi Sanyal and Arun K. Trivedi

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190076

      This article was originally published in Proteomics 2011, 11, 1517–1529, DOI 10.1002/pmic.201000720

    14. A new versatile peptide-based size exclusion chromatography platform for global profiling and quantitation of candidate biomarkers in hepatocellular carcinoma specimens (page 555)

      Hyoung-Joo Lee, Keun Na, Min-Seok Kwon, Taesung Park, Kyung Sik Kim, Hoguen Kim and Young-Ki Paik

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190077

      This article was originally published in Proteomics 2011, 11, 1976–1984, DOI 10.1002/pmic.201100002

    15. Identification of differentially expressed proteins in blood plasma of control and cigarette smoke-exposed mice by 2-D DIGE/MS (page 556)

      Arun K. Tewari, Alexandra Popova-Butler, Mohamed A. El-Mahdy and Jay L. Zweier

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190078

      This article was originally published in Proteomics 2011, 11, 2051–2062, DOI 10.1002/pmic.201000159

    16. Proteomics indicates modulation of tubulin polymerization by L-menthol inhibiting human epithelial colorectal adenocarcinoma cell proliferation (page 557)

      Uzma Faridi, Brijesh S. Sisodia, Ashutosh K. Shukla, Rakesh K. Shukla, Mahendra P. Darokar, Upendra N. Dwivedi and Ajit K. Shasany

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190079

      This article was originally published in Proteomics 2011, 11, 2115–2119, DOI 10.1002/pmic.201000691

    17. Shotgun proteomics of human bile in hilar cholangiocarcinoma (page 558)

      Shahid G. Farid, Rachel A. Craven, Jianhe Peng, Glenn K. Bonney, David N. Perkins, Peter J. Selby, K. Rajendra Prasad and Rosamonde E. Banks

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190080

      This article was originally published in Proteomics 2011, 11, 2134–2138, DOI 10.1002/pmic.201000653

    18. Proteomic technologies for the identification of disease biomarkers in serum: Advances and challenges ahead (page 559)

      Sandipan Ray, Panga J. Reddy, Rekha Jain, Kishore Gollapalli, Aliasgar Moiyadi and Sanjeeva Srivastava

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190081

      This article was originally published in Proteomics 2011, 11, 2139–2161, DOI 10.1002/pmic.201000460

    19. Glycoproteomics analysis to identify a glycoform on haptoglobin associated with lung cancer (page 560)

      Hsien-Yu Tsai, Kongsak Boonyapranai, Supawadee Sriyam, Chong-Jen Yu, Sz-Wei Wu, Kay-Hooi Khoo, Suree Phutrakul and Shui-Tein Chen

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190082

      This article was originally published in Proteomics 2011, 11, 2162–2170, DOI 10.1002/pmic.201000319

    20. A systematic analysis of the effects of increasing degrees of serum immunodepletion in terms of depth of coverage and other key aspects in top-down and bottom-up proteomic analyses (page 561)

      Matthew P. Welberry Smith, Steven L. Wood, Alexandre Zougman, Jenny T. C. Ho, Jianhe Peng, David Jackson, David A. Cairns, Andrew J. P. Lewington, Peter J. Selby and Rosamonde E. Banks

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190083

      This article was originally published in Proteomics 2011, 11, 2222–2235, DOI 10.1002/pmic.201100005

    21. Identification of a novel protein isoform derived from cancer-related splicing variants using combined analysis of transcriptome and proteome (page 562)

      Keiichi Hatakeyama, Keiichi Ohshima, Yorikane Fukuda, Shun-ichiro Ogura, Masanori Terashima, Ken Yamaguchi and Tohru Mochizuki

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190084

      This article was originally published in Proteomics 2011, 11, 2275–2282, DOI 10.1002/pmic.201100016

    22. Proteomic analysis of Escherichia coli associated with urinary tract infections (page 563)

      Andrew Smith, Jan-Pierre van Rooyen, Evelyn Argo and Phillip Cash

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190085

      This article was originally published in Proteomics 2011, 11, 2283–2293, DOI 10.1002/pmic.201000626

    23. A comparative MudPIT analysis identifies different expression profiles in heart compartments (page 564)

      Claudio Comunian, Francesca Rusconi, Antonella De Palma, Pietro Brunetti, Daniele Catalucci and Pier L. Mauri

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190086

      This article was originally published in Proteomics 2011, 11, 2320–2328, DOI 10.1002/pmic.201000479

    24. Characterizing the proteome of the human dorsolateral prefrontal cortex by shotgun mass spectrometry (page 565)

      Daniel Martins-de-Souza, Paul C. Guest, Hannah Steeb, Sandra Pietsch, Hassan Rahmoune, Laura W. Harris and Sabine Bahn

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190087

      This article was originally published in Proteomics 2011, 11, 2347–2353, DOI 10.1002/pmic.201000718

    25. Identification of proteins secreted by head and neck cancer cell lines using LC-MS/MS: Strategy for discovery of candidate serological biomarkers (page 566)

      Ranju Ralhan, Olena Masui, Leroi V. DeSouza, Ajay Matta, Muzafar Macha and K. W. Michael Siu

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190088

      This article was originally published in Proteomics 2011, 11, 2363–2376, DOI 10.1002/pmic.201000186

    26. Identification of 14-3-3β in human gastric cancer cells and its potency as a diagnostic and prognostic biomarker (page 567)

      Chien-Wei Tseng, Jyh-Chin Yang, Chiung-Nien Chen, Hsuan-Cheng Huang, Kai-Neng Chuang, Chen-Ching Lin, Hong-Shiee Lai, Po-Huang Lee, King-Jen Chang and Hsueh-Fen Juan

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190089

      This article was originally published in Proteomics 2011, 11, 2423–2439, DOI 10.1002/pmic.201000449

    27. Proteomic analysis of urinary exosomes from patients of early IgA nephropathy and thin basement membrane nephropathy (page 568)

      Pyong-Gon Moon, Jeong-Eun Lee, Sungyong You, Taek-Kyun Kim, Ji-Hoon Cho, In-San Kim, Tae-Hwan Kwon, Chan-Duck Kim, Sun-Hee Park, Daehee Hwang, Yong-Lim Kim and Moon-Chang Baek

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190090

      This article was originally published in Proteomics 2011, 11, 2459–2475, DOI 10.1002/pmic.201000443

    28. Identification and characterization of human leukocyte antigen class I ligands in renal cell carcinoma cells (page 569)

      Barbara Seliger, Sven P. Dressler, Chiara Massa, Christian V. Recktenwald, Florian Altenberend, Juergen Bukur, Francesco M. Marincola, Ena Wang, Stefan Stevanovic and Rudolf Lichtenfels

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190091

      This article was originally published in Proteomics 2011, 11, 2528–2541, DOI 10.1002/pmic.201000486

    29. A novel procedure for protein extraction from formalin-fixed paraffin-embedded tissues (page 570)

      Teresa Rodríguez-Rigueiro, Manuel Valladares-Ayerbes, Mar Haz-Conde, Moisés Blanco, Guadalupe Aparicio, Patricia Fernández-Puente, Francisco J. Blanco, Ma José Lorenzo, Luis A. Aparicio and Angélica Figueroa

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190092

      This article was originally published in Proteomics 2011, 11, 2555–2559, DOI 10.1002/pmic.201000809

    30. Electrophoresis

      Cancer biomarker discovery: Opportunities and pitfalls in analytical methods (page 571)

      Haleem J. Issaq, Timothy J. Waybright and Timothy D. Veenstra

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190093

      This article was originally published in Electrophoresis 2011, 32, 967–975, DOI 10.1002/elps.201000588

    31. Therapeutic plasma proteins – application of proteomics in process optimization, validation, and analysis of the final product (page 572)

      Dajana Gaso-Sokac, Spomenka Kovac, James Clifton and Djuro Josic

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190094

      This article was originally published in Electrophoresis 2011, 32, 1104–1117, DOI 10.1002/elps.201000641

    32. Structural analysis of the recombinant therapeutic product rFVIII and its PEGylated variants using 2-D DIGE (page 573)

      Christina Monetti, Hanspeter Rottensteiner, Herbert Gritsch, Alfred Weber, Friedrich Scheiflinger and Peter L. Turecek

      Article first published online: 10 OCT 2011 | DOI: 10.1002/prca.201190095

      This article was originally published in Electrophoresis 2011, 32, 1292–1301, DOI 10.1002/elps.201000627

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