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Molecular & Cellular Proteomics

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Table of Contents

June 2012; Volume 11,Issue 6

Research

  • You have access
    Alterations in Protein Regulators of Neurodevelopment in the Cerebrospinal Fluid of Infants with Posthemorrhagic Hydrocephalus of Prematurity
    Diego M. Morales, R. Reid Townsend, James P. Malone, Carissa A. Ewersmann, Elizabeth M. Macy, Terrie E. Inder and David D. Limbrick
    Molecular & Cellular Proteomics June 1, 2012, First published on December 20, 2011, 11 (6) M111.011973; https://doi.org/10.1074/mcp.M111.011973
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    Proteomic Analysis of Mitotic RNA Polymerase II Reveals Novel Interactors and Association With Proteins Dysfunctional in Disease
    André Möller, Sheila Q. Xie, Fabian Hosp, Benjamin Lang, Hemali P. Phatnani, Sonya James, Francisco Ramirez, Gayle B. Collin, Jürgen K. Naggert, M. Madan Babu, Arno L. Greenleaf, Matthias Selbach and Ana Pombo
    Molecular & Cellular Proteomics June 1, 2012, First published on December 22, 2011, 11 (6) M111.011767; https://doi.org/10.1074/mcp.M111.011767
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    Pharmacoproteomic Study of Three Different Chondroitin Sulfate Compounds on Intracellular and Extracellular Human Chondrocyte Proteomes
    Valentina Calamia, Patricia Fernández-Puente, Jesús Mateos, Lucía Lourido, Beatriz Rocha, Eulália Montell, Josep Vergés, Cristina Ruiz-Romero and Francisco J. Blanco
    Molecular & Cellular Proteomics June 1, 2012, First published on December 27, 2011, 11 (6) M111.013417; https://doi.org/10.1074/mcp.M111.013417
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    CD90 is Identified as a Candidate Marker for Cancer Stem Cells in Primary High-Grade Gliomas Using Tissue Microarrays
    Jintang He, Yashu Liu, Thant Zhu, Jianhui Zhu, Francesco DiMeco, Angelo L. Vescovi, Jason A. Heth, Karin M. Muraszko, Xing Fan and David M. Lubman
    Molecular & Cellular Proteomics June 1, 2012, First published on December 27, 2011, 11 (6) M111.010744; https://doi.org/10.1074/mcp.M111.010744
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    Systems Kinomics Demonstrates Congo Basin Monkeypox Virus Infection Selectively Modulates Host Cell Signaling Responses as Compared to West African Monkeypox Virus
    Jason Kindrachuk, Ryan Arsenault, Anthony Kusalik, Kristen N. Kindrachuk, Brett Trost, Scott Napper, Peter B. Jahrling and Joseph E. Blaney
    Molecular & Cellular Proteomics June 1, 2012, First published on December 28, 2011, 11 (6) M111.015701; https://doi.org/10.1074/mcp.M111.015701
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    La Autoantigen Mediates Oxidant Induced De Novo Nrf2 Protein Translation
    Jack Zhang, Thai Nho Dinh, Kyle Kappeler, George Tsaprailis and Qin M. Chen
    Molecular & Cellular Proteomics June 1, 2012, First published on December 29, 2011, 11 (6) M111.015032; https://doi.org/10.1074/mcp.M111.015032
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    On Marathons and Sprints: An Integrated Quantitative Proteomics and Transcriptomics Analysis of Differences Between Slow and Fast Muscle Fibers
    Hannes C. A. Drexler, Aaron Ruhs, Anne Konzer, Luca Mendler, Mark Bruckskotten, Mario Looso, Stefan Günther, Thomas Boettger, Marcus Krüger and Thomas Braun
    Molecular & Cellular Proteomics June 1, 2012, First published on December 30, 2011, 11 (6) M111.010801; https://doi.org/10.1074/mcp.M111.010801
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    LC-MS/MS Analysis of Differentially Expressed Glioblastoma Membrane Proteome Reveals Altered Calcium Signaling and Other Protein Groups of Regulatory Functions
    Ravindra Varma Polisetty, Poonam Gautam, Rakesh Sharma, H. C. Harsha, Sudha C. Nair, Manoj Kumar Gupta, Megha S. Uppin, Sundaram Challa, Aneel Kumar Puligopu, Praveen Ankathi, Aniruddh K. Purohit, Giriraj R. Chandak, Akhilesh Pandey and Ravi Sirdeshmukh
    Molecular & Cellular Proteomics June 1, 2012, First published on January 4, 2012, 11 (6) M111.013565; https://doi.org/10.1074/mcp.M111.013565
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    Comparative Large Scale Characterization of Plant versus Mammal Proteins Reveals Similar and Idiosyncratic N-α-Acetylation Features
    Willy V. Bienvenut, David Sumpton, Aude Martinez, Sergio Lilla, Christelle Espagne, Thierry Meinnel and Carmela Giglione
    Molecular & Cellular Proteomics June 1, 2012, First published on January 5, 2012, 11 (6) M111.015131; https://doi.org/10.1074/mcp.M111.015131
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    Proteome Analyses of Hydrogen-producing Hyperthermophilic Archaeon Thermococcus onnurineus NA1 in Different One-carbon Substrate Culture Conditions
    Yoon-Jung Moon, Joseph Kwon, Sung-Ho Yun, Hye Li Lim, Min-Sik Kim, Sung Gyun Kang, Jung-Hyun Lee, Jong-Soon Choi, Seung Il Kim and Young-Ho Chung
    Molecular & Cellular Proteomics June 1, 2012, First published on January 9, 2012, 11 (6) M111.015420; https://doi.org/10.1074/mcp.M111.015420
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    Restricting Fermentative Potential by Proteome Remodeling
    Gérémy Clair, Jean Armengaud and Catherine Duport
    Molecular & Cellular Proteomics June 1, 2012, First published on January 9, 2012, 11 (6) M111.013102; https://doi.org/10.1074/mcp.M111.013102
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    Chitinase-like Proteins are Candidate Biomarkers for Sepsis-induced Acute Kidney Injury
    B. Maddens, B. Ghesquière, R. Vanholder, D. Demon, J. Vanmassenhove, K. Gevaert and E. Meyer
    Molecular & Cellular Proteomics June 1, 2012, First published on January 10, 2012, 11 (6) M111.013094; https://doi.org/10.1074/mcp.M111.013094
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    Metabolomics of Human Cerebrospinal Fluid Identifies Signatures of Malignant Glioma
    Jason W. Locasale, Tamar Melman, Susan Song, Xuemei Yang, Kenneth D. Swanson, Lewis C. Cantley, Eric T. Wong and John M. Asara
    Molecular & Cellular Proteomics June 1, 2012, First published on January 12, 2012, 11 (6) M111.014688; https://doi.org/10.1074/mcp.M111.014688
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    Integrated Proteomic, Transcriptomic, and Biological Network Analysis of Breast Carcinoma Reveals Molecular Features of Tumorigenesis and Clinical Relapse
    Marcin Imielinski, Sangwon Cha, Tomas Rejtar, Elizabeth A. Richardson, Barry L. Karger and Dennis C. Sgroi
    Molecular & Cellular Proteomics June 1, 2012, First published on January 12, 2012, 11 (6) M111.014910; https://doi.org/10.1074/mcp.M111.014910
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    Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis
    Ludovic C. Gillet, Pedro Navarro, Stephen Tate, Hannes Röst, Nathalie Selevsek, Lukas Reiter, Ron Bonner and Ruedi Aebersold
    Molecular & Cellular Proteomics June 1, 2012, First published on January 18, 2012, 11 (6) O111.016717; https://doi.org/10.1074/mcp.O111.016717
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    Glycosylation of Human Milk Lactoferrin Exhibits Dynamic Changes During Early Lactation Enhancing Its Role in Pathogenic Bacteria-Host Interactions
    Mariana Barboza, Janneth Pinzon, Saumya Wickramasinghe, John W. Froehlich, Isabelle Moeller, Jennifer T. Smilowitz, L. Renee Ruhaak, Jincui Huang, Bo Lönnerdal, J. Bruce German, Juan F. Medrano, Bart C. Weimer and Carlito B. Lebrilla
    Molecular & Cellular Proteomics June 1, 2012, First published on January 19, 2012, 11 (6) M111.015248; https://doi.org/10.1074/mcp.M111.015248
  • Open Access
    Mapping Yeast N-Glycosites with Isotopically Recoded Glycans
    Mark A. Breidenbach, Krishnan K. Palaniappan, Austin A. Pitcher and Carolyn R. Bertozzi
    Molecular & Cellular Proteomics June 1, 2012, First published on January 19, 2012, 11 (6) M111.015339; https://doi.org/10.1074/mcp.M111.015339
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    Interaction Proteomics Identify NEURL4 and the HECT E3 Ligase HERC2 as Novel Modulators of Centrosome Architecture
    Abdallah K. Al-Hakim, Mikhail Bashkurov, Anne-Claude Gingras, Daniel Durocher and Laurence Pelletier
    Molecular & Cellular Proteomics June 1, 2012, First published on January 19, 2012, 11 (6) M111.014233; https://doi.org/10.1074/mcp.M111.014233
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    Quantitative Analysis of the Chromatin Proteome in Disease Reveals Remodeling Principles and Identifies High Mobility Group Protein B2 as a Regulator of Hypertrophic Growth
    Sarah Franklin, Haodong Chen, Scherise Mitchell-Jordan, Shuxun Ren, Yibin Wang and Thomas M. Vondriska
    Molecular & Cellular Proteomics June 1, 2012, First published on January 23, 2012, 11 (6) M111.014258; https://doi.org/10.1074/mcp.M111.014258
  • Open Access
    The Proteomic Profile of Circulating Pentraxin 3 (PTX3) Complex in Sepsis Demonstrates the Interaction with Azurocidin 1 and Other Components of Neutrophil Extracellular Traps
    Kenji Daigo, Naotaka Yamaguchi, Takeshi Kawamura, Koichi Matsubara, Shuying Jiang, Riuko Ohashi, Yukio Sudou, Tatsuhiko Kodama, Makoto Naito, Kenji Inoue and Takao Hamakubo
    Molecular & Cellular Proteomics June 1, 2012, First published on January 25, 2012, 11 (6) M111.015073; https://doi.org/10.1074/mcp.M111.015073
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    Proteomic Analysis of Zebrafish Caudal Fin Regeneration
    Sandeep Saxena, Sachin K. Singh, Mula G. Meena Lakshmi, Vuppalapaty Meghah, Bhawna Bhatti, Cherukuvada V. Brahmendra Swamy, Curam S. Sundaram and Mohammed M. Idris
    Molecular & Cellular Proteomics June 1, 2012, First published on January 25, 2012, 11 (6) M111.014118; https://doi.org/10.1074/mcp.M111.014118
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    A Proteome Comparison Between Physiological Angiogenesis and Angiogenesis in Glioblastoma
    Dana A. M. Mustafa, Lennard J. Dekker, Christoph Stingl, Andreas Kremer, Marcel Stoop, Peter A. E. Sillevis Smitt, Johan M. Kros and Theo M. Luider
    Molecular & Cellular Proteomics June 1, 2012, First published on January 25, 2012, 11 (6) M111.008466; https://doi.org/10.1074/mcp.M111.008466
  • Open Access
    Multi High-Throughput Approach for Highly Selective Identification of Vaccine Candidates: the Group A Streptococcus Case
    Giuliano Bensi, Marirosa Mora, Giovanna Tuscano, Massimiliano Biagini, Emiliano Chiarot, Mauro Bombaci, Sabrina Capo, Fabiana Falugi, Andrea G. O. Manetti, Paolo Donato, Erwin Swennen, Marilena Gallotta, Manuela Garibaldi, Vittoria Pinto, Nico Chiappini, James M. Musser, Robert Janulczyk, Massimo Mariani, Maria Scarselli, John L. Telford, Renata Grifantini, Nathalie Norais, Immaculada Margarit and Guido Grandi
    Molecular & Cellular Proteomics June 1, 2012, First published on January 27, 2012, 11 (6) M111.015693; https://doi.org/10.1074/mcp.M111.015693
  • Open Access
    Evaluation and Properties of the Budding Yeast Phosphoproteome
    Grigoris D. Amoutzias, Ying He, Kathryn S. Lilley, Yves Van de Peer and Stephen G. Oliver
    Molecular & Cellular Proteomics June 1, 2012, First published on January 27, 2012, 11 (6) M111.009555; https://doi.org/10.1074/mcp.M111.009555
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    Identification of Candidate Biomarkers for Early Detection of Human Lung Squamous Cell Cancer by Quantitative Proteomics
    Gu-Qing Zeng, Pang-Fei Zhang, Xingming Deng, Feng-Lei Yu, Cui Li, Yan Xu, Hong Yi, Mao-Yu Li, Rong Hu, Jian-Hong Zuo, Xin-Hui Li, Xun-Xun Wan, Jia-Quan Qu, Qiu-Yan He, Jian-Huang Li, Xu Ye, Yu Chen, Jiao-Yang Li and Zhi-Qiang Xiao
    Molecular & Cellular Proteomics June 1, 2012, First published on January 31, 2012, 11 (6) M111.013946; https://doi.org/10.1074/mcp.M111.013946
  • Open Access
    Global Stability of Plasma Proteomes for Mass Spectrometry-Based Analyses
    Lisa J. Zimmerman, Ming Li, Wendell G. Yarbrough, Robbert J. C. Slebos and Daniel C. Liebler
    Molecular & Cellular Proteomics June 1, 2012, First published on February 1, 2012, 11 (6) M111.014340; https://doi.org/10.1074/mcp.M111.014340
  • Open Access
    Rapid Identification of Monospecific Monoclonal Antibodies Using a Human Proteome Microarray
    Jun Seop Jeong, Lizhi Jiang, Edisa Albino, Josean Marrero, Hee Sool Rho, Jianfei Hu, Shaohui Hu, Carlos Vera, Diane Bayron-Poueymiroy, Zully Ann Rivera-Pacheco, Leonardo Ramos, Cecil Torres-Castro, Jiang Qian, Joseph Bonaventura, Jef D. Boeke, Wendy Y. Yap, Ignacio Pino, Daniel J. Eichinger, Heng Zhu and Seth Blackshaw
    Molecular & Cellular Proteomics June 1, 2012, First published on February 3, 2012, 11 (6) O111.016253; https://doi.org/10.1074/mcp.O111.016253
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    Altered Expression of Sialylated Glycoproteins in Breast Cancer Using Hydrazide Chemistry and Mass Spectrometry
    Yuan Tian, Francisco J. Esteva, Jin Song and Hui Zhang
    Molecular & Cellular Proteomics June 1, 2012, First published on February 7, 2012, 11 (6) M111.011403; https://doi.org/10.1074/mcp.M111.011403
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    Cross-talk between Receptor Tyrosine Kinase and Tumor Necrosis Factor-α Signaling Networks Regulates Apoptosis but not Proliferation
    Elsa M. Beyer and Gavin MacBeath
    Molecular & Cellular Proteomics June 1, 2012, First published on February 8, 2012, 11 (6) M111.013292; https://doi.org/10.1074/mcp.M111.013292
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    Heterogenous Turnover of Sperm and Seminal Vesicle Proteins in the Mouse Revealed by Dynamic Metabolic Labeling
    Amy J. Claydon, Steven A. Ramm, Andrea Pennington, Jane L. Hurst, Paula Stockley and Robert Beynon
    Molecular & Cellular Proteomics June 1, 2012, First published on February 13, 2012, 11 (6) M111.014993; https://doi.org/10.1074/mcp.M111.014993
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    Systematic Identification of the HSP90 Regulated Proteome
    Zhixiang Wu, Amin Moghaddas Gholami and Bernhard Kuster
    Molecular & Cellular Proteomics June 1, 2012, First published on February 14, 2012, 11 (6) M111.016675; https://doi.org/10.1074/mcp.M111.016675
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    Protein Interaction Profiling of the p97 Adaptor UBXD1 Points to a Role for the Complex in Modulating ERGIC-53 Trafficking
    Dale S. Haines, J. Eugene Lee, Stephen L. Beauparlant, Dane B. Kyle, Willem den Besten, Michael J. Sweredoski, Robert L. J. Graham, Sonja Hess and Raymond J. Deshaies
    Molecular & Cellular Proteomics June 1, 2012, First published on February 14, 2012, 11 (6) M111.016444; https://doi.org/10.1074/mcp.M111.016444
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    Human Biomarker Discovery and Predictive Models for Disease Progression for Idiopathic Pneumonia Syndrome Following Allogeneic Stem Cell Transplantation
    Daniela M. Schlatzer, Jean-Eudes Dazard, Rob M. Ewing, Serguei Ilchenko, Sara E. Tomcheko, Saada Eid, Vincent Ho, Greg Yanik, Mark R. Chance and Kenneth R. Cooke
    Molecular & Cellular Proteomics June 1, 2012, First published on February 15, 2012, 11 (6) M111.015479; https://doi.org/10.1074/mcp.M111.015479
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    TSLP Signaling Network Revealed by SILAC-Based Phosphoproteomics
    Jun Zhong, Min-Sik Kim, Raghothama Chaerkady, Xinyan Wu, Tai-Chung Huang, Derese Getnet, Christopher J. Mitchell, Shyam M. Palapetta, Jyoti Sharma, Robert N. O'Meally, Robert N. Cole, Akinori Yoda, Albrecht Moritz, Marc M. Loriaux, John Rush, David M. Weinstock, Jeffrey W. Tyner and Akhilesh Pandey
    Molecular & Cellular Proteomics June 1, 2012, First published on February 16, 2012, 11 (6) M112.017764; https://doi.org/10.1074/mcp.M112.017764
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    A Profile of an Endosymbiont-enriched Fraction of the Coral Stylophora pistillata Reveals Proteins Relevant to Microbial-Host Interactions
    Andrew J. Weston, Walter C. Dunlap, J. Malcolm Shick, Anke Klueter, Katrina Iglic, Ana Vukelic, Antonio Starcevic, Malcolm Ward, Mark L. Wells, Charles G. Trick and Paul F. Long
    Molecular & Cellular Proteomics June 1, 2012, First published on February 20, 2012, 11 (6) M111.015487; https://doi.org/10.1074/mcp.M111.015487

Technological Innovation and Resources

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    Protein Identification Using Top-Down Spectra
    Xiaowen Liu, Yakov Sirotkin, Yufeng Shen, Gordon Anderson, Yihsuan S. Tsai, Ying S. Ting, David R. Goodlett, Richard D. Smith, Vineet Bafna and Pavel A. Pevzner
    Molecular & Cellular Proteomics June 1, 2012, First published on October 25, 2011, 11 (6) M111.008524; https://doi.org/10.1074/mcp.M111.008524
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    Interlaboratory Evaluation of Automated, Multiplexed Peptide Immunoaffinity Enrichment Coupled to Multiple Reaction Monitoring Mass Spectrometry for Quantifying Proteins in Plasma
    Eric Kuhn, Jeffrey R. Whiteaker, D. R. Mani, Angela M. Jackson, Lei Zhao, Matthew E. Pope, Derek Smith, Keith D. Rivera, N. Leigh Anderson, Steven J. Skates, Terry W. Pearson, Amanda G. Paulovich and Steven A. Carr
    Molecular & Cellular Proteomics June 1, 2012, First published on December 22, 2011, 11 (6) M111.013854; https://doi.org/10.1074/mcp.M111.013854
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    Sequential Multiplexed Analyte Quantification Using Peptide Immunoaffinity Enrichment Coupled to Mass Spectrometry
    Jeffrey R. Whiteaker, Lei Zhao, Chenwei Lin, Ping Yan, Pei Wang and Amanda G. Paulovich
    Molecular & Cellular Proteomics June 1, 2012, First published on December 27, 2011, 11 (6) M111.015347; https://doi.org/10.1074/mcp.M111.015347
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    iTRAQ Labeling is Superior to mTRAQ for Quantitative Global Proteomics and Phosphoproteomics
    Philipp Mertins, Namrata D. Udeshi, Karl R. Clauser, DR Mani, Jinal Patel, Shao-en Ong, Jacob D. Jaffe and Steven A. Carr
    Molecular & Cellular Proteomics June 1, 2012, First published on December 30, 2011, 11 (6) M111.014423; https://doi.org/10.1074/mcp.M111.014423
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    Determining Degradation and Synthesis Rates of Arabidopsis Proteins Using the Kinetics of Progressive 15N Labeling of Two-dimensional Gel-separated Protein Spots
    Lei Li, Clark J. Nelson, Cory Solheim, James Whelan and A. Harvey Millar
    Molecular & Cellular Proteomics June 1, 2012, First published on January 3, 2012, 11 (6) M111.010025; https://doi.org/10.1074/mcp.M111.010025
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    Development of a Novel Method for Analyzing Collagen O-glycosylations by Hydrazide Chemistry
    Yuki Taga, Masashi Kusubata, Kiyoko Ogawa-Goto and Shunji Hattori
    Molecular & Cellular Proteomics June 1, 2012, First published on January 13, 2012, 11 (6) M111.010397; https://doi.org/10.1074/mcp.M111.010397
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    msCompare: A Framework for Quantitative Analysis of Label-free LC-MS Data for Comparative Candidate Biomarker Studies
    Berend Hoekman, Rainer Breitling, Frank Suits, Rainer Bischoff and Peter Horvatovich
    Molecular & Cellular Proteomics June 1, 2012, First published on February 7, 2012, 11 (6) M111.015974; https://doi.org/10.1074/mcp.M111.015974
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In this issue

Molecular & Cellular Proteomics: 11 (6)
Molecular & Cellular Proteomics
Vol. 11, Issue 6
1 Jun 2012
  • Table of Contents
  • Table of Contents (PDF)
  • Cover (PDF)
  • About the Cover
  • Index by author
  • Ed Board (PDF)
  • Front Matter (PDF)

Issue highlights

  • Interlaboratory Evaluation of Automated, Multiplexed Peptide Immunoaffinity Enrichment Coupled to Multiple Reaction Monitoring Mass Spectrometry for Quantifying Proteins in Plasma
  • Sequential Multiplexed Analyte Quantification Using Peptide Immunoaffinity Enrichment Coupled to Mass Spectrometry
  • Systematic Identification of the HSP90 Candidate Regulated Proteome
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