20 November 2008

Hailong Yang, Xu Wang, Xiuhong Liu, Jing Wu, Cunbao Liu, Weiming Gong, Zhiqiang Zhao, Jing Hong, Donghai Lin, Yizheng Wang, and Ren Lai

Antioxidant peptideomics reveals novel skin antioxidant system
MCP published November 20, 2008, 10.1074/mcp.M800297-MCP200 [Abstract] [Accepted Manuscript]  

Tingjun Hou, Zheng Xu, Wei Zhang, William A. McLaughlin, David A. Case, Yang Xu, and Wei Wang

Characterization of domain-peptide interaction interface: a generic structure-based model to decipher the binding specificity of SH3 domains
MCP published November 20, 2008, 10.1074/mcp.M800450-MCP200 [Abstract] [Accepted Manuscript]  

18 November 2008

Yuqin Wang, Claire Mulligan, Gareth Denyer, Frederic Delom, Franca Dagna-Bricarelli, Victor L. J. Tybulewicz, Elizabeth M. C. Fisher, William J. Griffiths, Dean Nizetic, and Juergen Groet

Quantitative proteomic characterisation of a mouse embryonic stem cell model of Down syndrome
MCP published November 18, 2008, 10.1074/mcp.M800256-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

16 November 2008

Virginie Gillardin, Frédéric Silvestre, Marc Dieu, Edouard Delaive, Martine Raes, Jean-Pierre Thomé, and Patrick Kestemont

Protein expression profiling in the African clawed frog Xenopus laevis tadpoles exposed to the polychlorinated biphenyls mixture aroclor 1254
MCP published November 16, 2008, 10.1074/mcp.M800323-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

15 November 2008

Jennifer A. Mead, Luca Bianco, Vanessa Ottone, Chris Barton, Richard G. Kay, Kathryn S. Lilley, Nicholas J. Bond, and Conrad Bessant

MRMaid: the web-based tool for designing multiple reaction monitoring (MRM) transitions
MCP published November 15, 2008, 10.1074/mcp.M800192-MCP200 [Abstract] [Accepted Manuscript]  

13 November 2008

Kyoungmi Kim, Pavel Aronov, Stanislav O. Zakharkin, Danielle Anderson, Bertrand Perroud, Ian M. Thompson, and Robert H. Weiss

Urine metabolomic analysis for kidney cancer detection and biomarker discovery
MCP published November 13, 2008, 10.1074/mcp.M800165-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

12 November 2008

Jiyang Zhang, Jie Ma, Lei Dou, Songfeng Wu, Xiaohong Qian, Hongwei Xie, Yunping Zhu, and Fuchu He

Bayesian nonparametric model for the validation of peptide identification in shotgun proteomics
MCP published November 12, 2008, 10.1074/mcp.M700558-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

11 November 2008

Stefan Hanke and Matthias Mann

The phosphotyrosine interactome of the insulin receptor family and its substrates IRS-1 and IRS-2
MCP published November 11, 2008, 10.1074/mcp.M800407-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

10 November 2008

Elena Wiederhold, Tejas Gandhi, Hjalmar P. Permentier, Rainer Breitling, Bert Poolman, and Dirk J. Slotboom

The yeast vacuolar membrane proteome
MCP published November 10, 2008, 10.1074/mcp.M800372-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

4 November 2008

Kun Liu, Lu Qian, Wenrui Li, Xinyu Deng, Xilin Chen, Wei Sun, Handong Wei, Xiaohong Qian, Ying Jiang, and Fuchu He

Two-dimensional blue native/SDS PAGE analysis reveals HSPs chaperone machinery involved in HBV production in HepG2.2.15 cells
MCP published November 4, 2008, 10.1074/mcp.M800250-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Qiaojun Fang, Andrew Strand, Wendy Law, Vitor M. Faca, Matthew P. Fitzgibon, Nathalie Hamel, Benoit Houle, Xin Liu, Damon H. May, Gereon Poschmann, Line Roy, Kai Stühler, Wantao Ying, Jiyang Zhang, Zhaobin Zheng, John J. M. Bergeron, Sam Hanash, Fuchu He, Blair R. Leavitt, Helmut E. Meyer, Xiaohong Qian, and Martin W. McIntosh

Brain-specific proteins decline in the cerebrospinal fluid of humans with Huntington's disease
MCP published November 4, 2008, 10.1074/mcp.M800231-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

3 November 2008

Christian Atsriku, David J. Britton, Jason M. Held, Birgit Schilling, Gary K. Scott, Bradford W. Gibson, Christopher C. Benz, and Michael A. Baldwin

Systematic mapping of posttranslational modifications in human estrogen receptor alpha, with emphasis on novel phosphorylation sites
MCP published November 3, 2008, 10.1074/mcp.M800282-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

28 October 2008

Daniel Schwartz, Michael F. Chou, and George M. Church

Predicting protein post-translational modifications using meta-analysis of proteome-scale data sets
MCP published October 28, 2008, 10.1074/mcp.M800332-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

24 October 2008

Raymond Cheong, Chiaochun Joanne Wang, and Andre Levchenko

High-content cell screening in a microfluidic device
MCP published October 24, 2008, 10.1074/mcp.M800291-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data] [Supplemental Data]  

Huiming Lu, Guanjun Gao, Guangzhi Xu, Lu Fan, Longfei Yin, Binghui Shen, and Yuejin Hua

Deinococcus radiodurans PprI switches on DNA damage-response and cellular survival networks after radiation damage
MCP published October 24, 2008, 10.1074/mcp.M800123-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data] [Supplemental Data]  

23 October 2008

Cuiping Pan, Chanchal Kumar, Sebastian Bohl, Ursula Klingmueller, and Matthias Mann

Comparative proteomic phenotyping of cell lines and primary cells to assess preservation of cell type specific functions
MCP published October 23, 2008, 10.1074/mcp.M800258-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

21 October 2008

Chu-Wei Kuo, Chin-Mei Chen, Ying-Chu Lee, Sin-Tak Chu, and Kay-Hooi Khoo

Glycomic and proteomic analyses of mouse uterine luminal fluid revealed a predominance of Lewis Y and X epitopes on specific protein carriers
MCP published October 21, 2008, 10.1074/mcp.M800320-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

20 October 2008

Matthew E. Cockman, James D. Webb, Holger B. Kramer, Benedikt M. Kessler, and Peter J. Ratcliffe

Proteomic-based identification of novel factor inhibiting HIF (FIH) substrates indicates widespread asparaginyl hydroxylation of ankyrin repeat domain-containing proteins
MCP published October 20, 2008, 10.1074/mcp.M800340-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Ming-Kuem Lin, Young-Jin Lee, Tony J. Lough, Brett S. Phinney, and William J. Lucas

Analysis of the pumpkin phloem proteome provides functional insights into angiosperm sieve tube function
MCP published October 20, 2008, 10.1074/mcp.M800420-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Marlene Gharib, Maria Marcantonio, Sylvia G. Lehmann, Mathieu Courcelles, Sylvain Meloche, Alain Verreault, and Pierre Thibault

Artifactual sulfation of silver-stained proteins: Implications for the assignment of phosphorylation and sulfation sites
MCP published October 20, 2008, 10.1074/mcp.M800327-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Haizhen Zhang, Xiaoting Tang, Gerhard R. Munske, Nikola Tolic, Gordon A. Anderson, and James E. Bruce

Identification of protein-protein interactions and topologies in living cells with chemical cross-linking and mass spectrometry
MCP published October 20, 2008, 10.1074/mcp.M800232-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Sean C. Bendall, Chris Hughes, J. Larry Campbell, Morag H. Stewart, Paula Pittock, Suya Liu, Eric Bonneil, Pierre Thibault, Mickie Bhatia, and Gilles A. Lajoie

An enhanced mass spectrometry approach reveals human embryonic stem cell growth factors in culture
MCP published October 20, 2008, 10.1074/mcp.M800190-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data] [Supplemental Data]  

17 October 2008

Aldrin V Gomes, Glen W Young, Yeuju Wang, Chenggong Zong, Mansoureh Eghbali, Oliver Drews, Haojie Lu, Enrico Stefani, and Peipei Ping

Contrasting proteome biology and functional heterogeneity of the 20S proteasome complexes in mammalian tissues
MCP published October 17, 2008, 10.1074/mcp.M800058-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

15 October 2008

Claudia A. McDonald, Jane Y. Yang, Vinita Marathe, Ten-Yang Yen, and Bruce A. Macher

Combining results from lectin affinity chromatography and glyco-capture approaches substantially improves the coverage of the glycoproteome
MCP published October 15, 2008, 10.1074/mcp.M800272-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

14 October 2008

Benjamin L. Schulz and Markus Aebi

Analysis of glycosylation site occupancy reveals a role for Ost3p and Ost6p in site-specific N-glycosylation efficiency
MCP published October 14, 2008, 10.1074/mcp.M800219-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Christin Süß, Cornelia Czupalla, Christof Winter, Theresia Pursche, Klaus-Peter Knoch, Michael Schroeder, Bernard Hoflack, and Michele Solimena

Rapid changes of mRNA binding protein levels following glucose and IBMX stimulation of insulinoma INS-1 cells
MCP published October 14, 2008, 10.1074/mcp.M800157-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

7 October 2008

Han Roelofsen, Martijn Dijkstra, Desiree Weening, Marcel P. de Vries, Annemieke Hoek, and Roel J. Vonk

Comparison of isotope-labeled amino acid incorporation rates (CILAIR) provides a quantitative method to study tissue secretomes
MCP published October 7, 2008, 10.1074/mcp.M800254-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

6 October 2008

Evgeniy V. Petrotchenko, Kunhong Xiao, Jennifer Cable, Yiwen Chen, Nikolay V. Dokholyan, and Christoph H. Borchers

BiPS, a photo-cleavable, isotopically-coded, fluorescent crosslinker for structural proteomics
MCP published October 6, 2008, 10.1074/mcp.M800265-MCP200 [Abstract] [Accepted Manuscript]  

3 October 2008

Petra Van Damme, Sebastian Maurer-Stroh, Kim Plasman, Joost Van Durme, Niklaas Colaert, Evy Timmerman, Pieter-Jan Debock, Marc Goethals, Frederic Rousseau, Joost Schymkowitz, Joël Vandekerckhove, and Kris Gevaert

Analysis of protein processing by N-terminal proteomics reveals novel species-specific substrate determinants of granzyme B orthologs
MCP published October 3, 2008, 10.1074/mcp.M800060-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

29 September 2008

Rie Uematsu, Yasuro Shinohara, Hiroaki Nakagawa, Masaki Kurogochi, Jun-ichi Furukawa, Yoshiaki Miura, Masashi Akiyama, Hiroshi Shimizu, and Shin-Ichiro Nishimura

Glycosylation specific for adhesion molecules in epidermis and its receptor revealed by glycoform-focused reverse genomics
MCP published September 29, 2008, 10.1074/mcp.M800145-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Nadia Taouatas, A. F. Maarten Altelaar, Madalina M. Drugan, Andreas O. Helbig, Shabaz Mohammed, and Albert J. R. Heck

SCX-based fractionation of Lys-N generated peptides facilitates the targeted analysis of post-translational modifications
MCP published September 29, 2008, 10.1074/mcp.M800285-MCP200 [Abstract] [Accepted Manuscript]  

24 September 2008

Masaaki Oyama, Hiroko Kozuka-Hata, Shinya Tasaki, Kentaro Semba, Seisuke Hattori, Sumio Sugano, Jun-ichiro Inoue, and Tadashi Yamamoto

Temporal perturbation of tyrosine-phosphoproteome dynamics reveals the system-wide regulatory networks
MCP published September 24, 2008, 10.1074/mcp.M800186-MCP200 [Abstract] [Accepted Manuscript]  

23 September 2008

Suraj Dhungana, B. Alex Merrick, Kenneth B. Tomer, and Michael B. Fessler

Quantitative proteomic analysis of macrophage rafts reveals compartmentalized activation of the proteasome and of proteasome-mediated ERK activation in response to lipopolysaccharide
MCP published September 23, 2008, 10.1074/mcp.M800286-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

17 September 2008

Shoshana J. Wodak, Shuye Pu, James Vlasblom, and Bertrand Séraphin

Challenges and rewards of interaction proteomics
MCP published September 17, 2008, 10.1074/mcp.R800014-MCP200 [Abstract] [Accepted Manuscript]  

16 September 2008

Weiwei Wu, Heidi S. Slaastad, Daniel de la Rosa Carrillo, Tom Frey, Geir E. Tjonnfjord, Eva Boretti, Hans-Christian Aasheim, Vaclav Horejsi, and Fridtjof Lund-Johansen

Antibody array analysis with label-based detection and resolution of protein size
MCP published September 16, 2008, 10.1074/mcp.M800171-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

15 September 2008

Angel P. Diz, Edward Dudley, Barry W. MacDonald, Benjamin Piña, Ellen L. R. Kenchington, Eleftherios Zouros, and David O. F. Skibinski

Genetic variation underlying protein expression in eggs of the marine mussel Mytilus edulis
MCP published September 15, 2008, 10.1074/mcp.M800237-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

9 September 2008

Cristina Ruiz-Romero, Valentina Calamia, Jesus Mateos, Vanesa Carreira, Montserrat Martínez-Gomariz, Mercedes Fernández, and Francisco J. Blanco

Mitochondrial dysregulation of osteoarthritic human articular chondrocytes analyzed by proteomics: A decrease in mitochondrial superoxide dismutase points to a redox imbalance
MCP published September 9, 2008, 10.1074/mcp.M800292-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

8 September 2008

Marilyn Goudreault, Lisa M. D'Ambrosio, Michelle J. Kean, Michael Mullin, Brett G. Larsen, Amy Sanchez, Sidharth Chaudhry, Ginny I. Chen, Frank Sicheri, Alexey I. Nesvizhskii, Ruedi Aebersold, Brian Raught, and Anne-Claude Gingras

A PP2A phosphatase high-density interaction network identifies a novel striatin-interacting phosphatase and kinase complex linked to the cerebral cavernous malformation 3 (CCM3) protein
MCP published September 8, 2008, 10.1074/mcp.M800266-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

28 August 2008

Joohyun Lee, Jian Feng, Kimberly B. Campbell, Brian E. Scheffler, Wesley M. Garrett, Sandra Thibivilliers, Gary Stacey, Daniel Q. Naiman, Mark L. Tucker, M. A. Pastor-Corrales, and Bret Cooper

Quantitative proteomic analysis of bean plants infected by a virulent and avirulent obligate rust fungus
MCP published August 28, 2008, 10.1074/mcp.M800156-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

26 August 2008

Zhongyi Cheng, Yi Tang, Yue Chen, Sungchan Kim, Huadong Liu, Shawn S.C. Li, Wei Gu, and Yingming Zhao

Molecular characterization of propionyllysines in non-histone proteins
MCP published August 26, 2008, 10.1074/mcp.M800224-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Jason Mulvenna, Brett Hamilton, Shivashankar Nagaraj, Danielle Smyth, Alex Loukas, and Jeffrey Gorman

Proteomic analysis of the excretory/secretory component of the blood-feeding stage of the hookworm, Ancylostoma caninum
MCP published August 26, 2008, 10.1074/mcp.M800206-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

Sandra Pierre, Christian Maeurer, Ovidiu Coste, Wiebke Becker, Achim Schmidtko, Sabrina Holland, Claus Wittpoth, Gerd Geisslinger, and Klaus Scholich

Toponomic analysis of functional interactions of the ubiquitin ligase PAM during spinal nociceptive processing
MCP published August 26, 2008, 10.1074/mcp.M800201-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

23 August 2008

Junmei Zhang, Robert Sprung, Jimin Pei, Xiaohong Tan, Sungchan Kim, Heng Zhu, Chuan-Fa Liu, Nick V. Grishin, and Yingming Zhao

Lysine acetylation is a highly abundant and evolutionarily conserved modification in E. coli
MCP published August 23, 2008, 10.1074/mcp.M800187-MCP200 [Abstract] [Accepted Manuscript] [Supplemental Data]  

22 August 2008

Rui Liu, Zhenjun Li, Shujun Bai, Haiyuan Zhang, Minghai Tang, Yunlong Lei, Lijuan Chen, Shufang Liang, Ying-lan Zhao, Yuquan Wei, and Canhua Huang

Mechanism of cancer cell adaptation to metabolic stress: proteomics identification of a novel thyroid hormone mediated gastric carcinogenic signaling pathway
MCP published August 22, 2008, 10.1074/mcp.M800195-MCP200 [Abstract] [Accepted Manuscript]  

20 August 2008

Diliana Dancheva Simeonova, Iuliana Susnea, Adrian Moise, Bernhard Schink, and Michael Przybylski

“Unknown-genome”-proteomics: A new NAD(P)- dependent epimerase/dehydratase revealed by N-terminal sequencing, inverted PCR and high resolution mass spectrometry
MCP published August 20, 2008, 10.1074/mcp.M800242-MCP200 [Abstract] [Accepted Manuscript]