PROTEOMICS

Cover image for Vol. 17 Issue 6

Editor-in-Chief: Lorna Stimson, Deputy Editor: Lucie Kalvodova

Impact Factor: 4.079

ISI Journal Citation Reports © Ranking: 2015: 13/77 (BIOCHEMICAL RESEARCH METHODS); 75/289 (Biochemistry & Molecular Biology)

Online ISSN: 1615-9861

Associated Title(s): PROTEOMICS - Clinical Applications

Viewpoint Forum
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Viewpoint articles are intended to stimulate discussion and debate of areas of general concern and controversy in the field of proteomics. Therefore you are encouraged to submit your own views about the raised topics. You may respond to the article itself or to comments of other colleagues as listed under "Read Comments". Please send all comments by e-mail to the Editor-in-Chief, Mike Dunn at eic.proteomics1@ucd.ie



Linking cancer genome to proteome: NCI's investment into proteogenomics
Robert C. Rivers, Christopher Kinsinger, Emily S. Boja, Tara Hiltke, Mehdi Mesri and Henry Rodriguez
Published Online: Oct 18 2014
DOI: 10.1002/pmic.201400193
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Elongator and SPT4/SPT5 complexes as proxy to study RNA polymerase II transcript elongation control of plant development
Mieke Van Lijsebettens, Julius Dürr, Magdalena Woloszynska and Klaus D. Grasser
Published Online: May 22 2014
DOI: 10.1002/pmic.201400024
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Why have so few proteomic biomarkers “survived” validation? (Sample size and independent validation considerations)
Belinda Hernández, Andrew Parnell and Stephen R. Pennington
Published Online: May 16 2014
DOI: 10.1002/pmic.201300377
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Micro analysis to map the glycome code
Giuseppina Simone
Published Online: Mar 25 2014
DOI: 10.1002/pmic.201300324
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Beyond antibodies: New affinity reagents to unlock the proteome
Bridget Lollo, Fintan Steele and Larry Gold
Published Online: Feb 20 2014
DOI: 10.1002/pmic.201300187
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The proteomic to biology inference, a frequently overlooked concern in the interpretation of proteomic data: A plea for functional validation
Thierry Rabilloud and Pierre Lescuyer
Published Online: Jan 6 2014
DOI: 10.1002/pmic.201300413
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Total variance should drive data handling strategies in third generation proteomic studies
Abigail G. Herrmann, James L. Searcy, Thierry Le Bihan, James McCulloch and Ruth F. Deighton
Published Online: Oct 27 2013
DOI: 10.1002/pmic.201300056
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Proteomics of CaCO3 biomineral-associated proteins: How to properly address their analysis
Benjamin Marie, Paula Ramos-Silva, Frédéric Marin and Arul Marie
Published Online: Oct 3 2013
DOI: 10.1002/pmic.201300162
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Surfaceomics and surface-enhanced Raman spectroscopy of environmental microbes: Matching cofactors with redox-active surface proteins
Hans K. Carlson, Anthony T. Iavarone, John D. Coates
Published Online: Jun 18 2013
DOI: 10.1002/pmic.201300010
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The challenge of the proteome dynamic range and its implications for in-depth proteomics
Roman A. Zubarev
Published Online: Mar 8 2013
DOI: 10.1002/pmic.201200451
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Interlaboratory studies and initiatives developing standards for proteomics
Alexander R. Ivanov, Christopher M. Colangelo, Craig P. Dufresne, David B. Friedman, Kathryn S. Lilley, Karl Mechtler, Brett S. Phinney, Kristie L. Rose, Paul A. Rudnick, Brian C. Searle, Scott A. Shaffer and Susan T. Weintraub
Published Online: Feb 19 2013
DOI: 10.1002/pmic.201200532
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Protein chimerism: Novel source of protein diversity in humans adds complexity to bottom-up proteomics
Juan Casado-Vela, Juan Carlos Lacal and Felix Elortza
Published Online: Dec 12 2012
DOI: 10.1002/pmic.201200371
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Tools and challenges for diversity-driven proteomics in Brazil
Magno Junqueira and Paulo Costa Carvalho
Published Online: Jul 30 2012
DOI: 10.1002/pmic.201200058
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Antibodies for profiling the human proteome - The Human Protein Atlas as a resource for cancer research
Anna Asplund, Per-Henrik D. Edqvist, Jochen M. Schwenk and Fredrik Pontén
Published Online: Jul 17 2012
DOI: 10.1002/pmic.201100504
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Why complexity and entropy matter: Information, posttranslational modifications, and assay fidelity
Jamie Sherman, Mark P. Molloy, Alma L. Burlingame
Published Online: May 11 2012
DOI: 10.1002/pmic.201100459
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Symbol nomenclature for representing glycan structures: Extension to cover different carbohydrate types
David J. Harvey, Anthony H. Merry, Louise Royle, Matthew P. Campbell and Pauline M. Rudd
Published Online: Sep 27 2011
DOI: 10.1002/pmic.201100300
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UniCarbKB: Putting the pieces together for glycomics research
Matthew P. Campbell, Catherine A. Hayes, Weston B. Struwe, Marc R. Wilkins, Kiyoko F. Aoki-Kinoshita, David J. Harvey, Pauline M. Rudd, Daniel Kolarich, Frederique Lisacek, Niclas G. Karlsson and Nicolle H. Packer
Published Online: Sep 19 2011
DOI: 10.1002/pmic.201100302
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Gene-centric view on the human proteome project: The example of the Russian roadmap for chromosome 18
Alexander Archakov, Alexander Aseev, Victor Bykov, Anatoly Grigoriev, Vadim Govorun, Vadim Ivanov, Alexander Khlunov, Andrey Lisitsa, Sergey Mazurenko, Alexander A. Makarov, Elena Ponomarenko, Renad Sagdeev and Konstantin Skryabin
Published Online: May 11 2011
DOI: 10.1002/pmic.201000540
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Time to articulate a vision for the future of plant proteomics – A global perspective: An initiative for establishing the International Plant Proteomics Organization (INPPO)
Ganesh Kumar Agrawal, Dominique Job, Michel Zivy, Vishwanath P. Agrawal, Ralph A. Bradshaw, Michael J. Dunn, Paul A. Haynes, Klaas J. van Wijk, Shoshi Kikuchi, Jenny Renaut, Wolfram Weckwerth and Randeep Rakwal
Published Online: Mar 23 2011
DOI: 10.1002/pmic.201000608
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Challenges for proteomics core facilities
Kathryn S. Lilley, Michael J. Deery and Laurent Gatto
Published Online: Feb 16 2011
DOI: 10.1002/pmic.201000693
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Quality control in LC-MS/MS
Thomas Köcher, Peter Pichler, Remco Swart and Karl Mechtler
Published Online: Feb 7 2011
DOI: 10.1002/pmic.201000578
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Quality meets quantity – quality control, data standards and repositories
Martin Eisenacher, Anke Schnabel and Christian Stephan
Published Online: Feb 7 2011
DOI: 10.1002/pmic.201000441
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Proteomics and systems biology to tackle biological complexity: Yeast as a case study
Lilia Alberghina, Claudia Cirulli
Published Online: Nov 9 2010
DOI: 10.1002/pmic.201000114
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Design considerations for proteomic reference materials
David M. Bunk
Published Online: Nov 2 2010
DOI: 10.1002/pmic.201000242
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Is a gene-centric human proteome project the best way for proteomics to serve biology?
Thierry Rabilloud, Denis Hochstrasser, Richard J. Simpson
Published Online: Jul 20 2010
DOI: 10.1002/pmic.201000220
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Symbol nomenclature for glycan representation
Ajit Varki, Richard D. Cummings, Jeffrey D. Esko, Hudson H. Freeze, Pamela Stanley, Jamey D. Marth, Carolyn R. Bertozzi, Gerald W. Hart, Marilynn E. Etzler
Published Online: Nov 9 2009
DOI: 10.1002/pmic.200900708
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Combining selected reaction monitoring with discovery proteomics in limited biological samples
Mukesh Kumar Gupta, Jin Woo Jung, Sang Jun Uhm, Hookeun Lee, Hoon Taek Lee, Kwang Pyo Kim
Published Online: Oct 6 2009
DOI: 10.1002/pmic.200900310
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Proposal for a standard system for drawing structural diagrams of N- and O-linked carbohydrates and related compounds
David J. Harvey, Anthony H. Merry, Louise Royle, Matthew P. Campbell, Raymond A. Dwek, Pauline M. Rudd
Published Online: Aug 7 2009
DOI: 10.1002/pmic.200900096
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Glycosylation as means of reducing sample complexity to enable quantitative proteomics
Bruno Domon
Published Online: Feb 27 2009
DOI: 10.1002/pmic.200800545
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How specific is my SRM?: The issue of precursor and product ion redundancy
Jamie Sherman, Matthew J. McKay, Keith Ashman, Mark P. Molloy
Published Online: Feb 27 2009
DOI: 10.1002/pmic.200800577
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Quantifying proteins by mass spectrometry: The selectivity of SRM is only part of the problem
Mark W. Duncan, Alfred L. Yergey, Scott D. Patterson
Published Online: Feb 27 2009 6:16AM
DOI: 10.1002/pmic.200800739
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Science, marketing and wishful thinking in quantitative proteomics
Murray Hackett
Published Online:20 Oct 2008
DOI: 10.1002/pmic.200800358
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Déjà vu in proteomics. A hit parade of repeatedly identified differentially expressed proteins
Jiri Petrak, Robert Ivanek, Ondrej Toman, Radek Cmejla, Jana Cmejlova, Daniel Vyoral, Jan Zivny, Christopher D. Vulpe
Published Online:29 Apr 2008
DOI: 10.1002/pmic.200700919
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AFM fishing nanotechnology is the way to reverse the Avogadro number in proteomics
Alexander Ivanovich Archakov, Yurii Dmitrievich Ivanov, Andrey Valerevich Lisitsa, Victor Gavrilovich Zgoda
Published Online:8 Dez 2006
DOI: 10.1002/pmic.200600467
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Is protein overlap in two-dimensional gels a serious practical problem?
Stephen W. Hunsucker, Mark W. Duncan
Published Online:23 Jan 2006
DOI: 10.1002/pmic.200500521
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Population proteomics: An emerging discipline to study metapopulation ecology
David G. Biron, Hugh D. Loxdale, Fleur Ponton, Hercules Moura, Laurent Marché, Christophe Brugidou, Frédéric Thomas
Published Online:23 Jan 2006
DOI: 10.1002/pmic.200500423
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Guidelines for the next 10 years of Proteomics
Marc R. Wilkins, Ron D. Appel, Jennifer E. Van Eyk, Maxey C. M. Chung, Angelika Görg, Michael Hecker, Lukas A. Huber, Hanno Langen, Andrew J. Link, Young-Ki Paik, Scott D. Patterson, Stephen R. Pennington, Thierry Rabilloud, Richard J. Simpson, Walter Weiss, Michael J. Dunn
Published Online:9 Jan 2006
DOI: 10.1002/pmic.200500856
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