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SPS' DigestIssue 39, 7-Mar-2007 |
EGOMiner: a comprehensive genomics and proteomics data analysis and biological function interpretation system
Feng W, Henning P, Wang M.
Conf Proc IEEE Eng Med Biol Soc (2004) 4: 2809-12
Development and assessment of scoring functions for protein identification using PMF data
Zhao Song, Luonan Chen, Ashwin Ganapathy, Xiu-Feng Wan, Laurent Brechenmacher, Nengbing Tao, David Emerich, Gary Stacey, Dong Xu
ELECTROPHORESIS (2007) 28(5): 864-870
Elimination of redundant protein identifications in high throughput proteomics
Kearney R, Blondeau F, McPherson P, Bell A, Servant F, Drapeau M, de Grandpre S, Jm Bergeron J.
Conf Proc IEEE Eng Med Biol Soc (2005) 5: 4803-6
Simple proteomic checks for detecting noncoding RNA
Stéphane Cruveiller, Oliver Clay, Kamel Jabbari, Giorgio Bernardi
PROTEOMICS (2007) 7(3): 361-363
Hardware acceleration of processing of mass spectrometric data for proteomics
Bogdan I, Coca D, Rivers J, Beynon RJ.
Bioinformatics Early Edition: published 3-Feb-2007
Identification of Actin as a 15-Deoxy-Delta(12,14)-prostaglandin J(2) Target in Neuroblastoma Cells: Mass Spectrometric, Computational, and Functional Approaches To Investigate the Effect on Cytoskeletal Derangement
Aldini G, Carini M, Vistoli G, Shibata T, Kusano Y, Gamberoni L, Dalle-Donne I, Milzani A, Uchida K.
Biochemistry Early Edition: published 13-Feb-2007
A Web-based platform to find out relations between OMIC data and clinical features
Hishiki T.
AMIA Annu Symp Proc (2006) 1: 950.
Large-Scale Automated Analysis of Location Patterns in Randomly Tagged 3T3 Cells
Garcia Osuna E, Hua J, Bateman NW, Zhao T, Berget PB, Murphy RF.
Ann Biomed Eng Early Edition: published 7-Feb-2007
Large-Scale Unrestricted Identification of Post-Translation Modifications Using Tandem Mass Spectrometry
Moshe Havilio Assaf Wool
ANALYTICAL CHEMISTRY (2007) 79(4): 1362-1368
SPIDer: Saccharomyces protein-protein interaction database
Wu X, Zhu L, Guo J, Fu C, Zhou H, Dong D, Li Z, Zhang DY, Lin K.
BMC Bioinformatics (2006) 7(Suppl 5): S16
Proteomic biomarker identification for diagnosis of early relapse in ovarian cancer
Oh JH, Nandi A, Gurnani P, Knowles L, Schorge J, Rosenblatt KP, Gao JX.
J Bioinform Comput Biol (2006) 4(6): 1159-79
Large-scale unrestricted identification of post-translation modifications using tandem mass spectrometry
Havilio M, Wool A.
Anal Chem (2007) 79(4): 1362-8
Robust classification of subcellular location patterns in high resolution 3D fluorescence microscope images
Chen X, Murphy R.
Conf Proc IEEE Eng Med Biol Soc (2004) 3: 1632-5
A Method for Automatically Interpreting Mass Spectra of 18O-Labeled Isotopic Clusters
Christopher J. Mason, Terry M. Therneau, Jeanette E. Eckel-Passow, Kenneth L. Johnson, Ann L. Oberg, Janet E. Olson, K. Sreekumaran Nair, David C. Muddiman, and H. Robert Bergen, III
Mol Cell Proteomics (2007) 6(2): 305-318
Selecting differentially expressed proteomic markers from mass spectrometry data
Wang X, Zhu W, Glimm J, Li J.
Conf Proc IEEE Eng Med Biol Soc (2005) 5: 4775-8
MyriMatch: Highly Accurate Tandem Mass Spectral Peptide Identification by Multivariate Hypergeometric Analysis
David L. Tabb, Christopher G. Fernando, and Matthew C. Chambers
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 654-661
Determination of the systematic and random measurement error in an LC-FTICR mass spectrometry analysis of a partially characterized complex peptide mixture
Yanofsky C, Kearney R, Morales F, Lam TK, Blakney G, Marshall A, Carrillo B, Lekpor K, Boismenu D, Bell A.
Conf Proc IEEE Eng Med Biol Soc (2004) 1: 216-9
Molecular Diagnosis and Biomarker Identification on SELDI proteomics data by ADTBoost method
Wang LY, Chakraborty A, Comaniciu D.
Conf Proc IEEE Eng Med Biol Soc (2005) 5: 4771-4
Protein sequence database for pathogenic arenaviruses
Bui HH, Botten J, Fusseder N, Pasquetto V, Mothe B, Buchmeier MJ, Sette A.
Immunome Res (2007) 3(1): 1
Fly-DPI: database of protein interactomes for D. melanogaster in the approach of systems biology
Lin CY, Chen SH, Cho CS, Chen CL, Lin FK, Lin CH, Chen PY, Lo CZ, Hsiung CA.
BMC Bioinformatics (2006) 7(Suppl 5): S18
Proteomics LIMS: A caBIGtrade mark Project, Year 1
Moloshok T.
AMIA Annu Symp Proc (2006) 1: 1116.
Predicting peptides bound to I-Ag7 class II histocompatibility molecules using a novel expectation-maximization alignment algorithm
Kuan Y. Chang, Anish Suri, Emil R. Unanue
PROTEOMICS (2007) 7(3): 367-377
Protein Family Classification with Partial Least Squares
Stephen O. Opiyo and Etsuko N. Moriyama
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 846-853
GlycoPep DB: A Tool for Glycopeptide Analysis Using a "Smart Search"
Eden P. Go, Kathryn R. Rebecchi, Dilusha S. Dalpathado, Mary L. Bandu, Ying Zhang, and Heather Desaire
ANALYTICAL CHEMISTRY (2007) 79(4): 1708-1713
Predicting zinc binding at the proteome level
Passerini A, Andreini C, Menchetti S, Rosato A, Frasconi P
BMC Bioinformatics (2007) 8: 39
A novel approach to speed up peptide sequencing via MS/MS spectra analysis
Liu J, Carrillo B, Yanofsky C, Beaudrie C, Morales F, Kearney R.
Conf Proc IEEE Eng Med Biol Soc (2005) 4: 4441-4
TOPP--the OpenMS proteomics pipeline
Kohlbacher O, Reinert K, Gropl C, Lange E, Pfeifer N, Schulz-Trieglaff O, Sturm M.
Bioinformatics (2007) 23(2): e191-7
Modeling protein tandem mass spectrometry data with an extended linear regression strategy
Liu H, Bonner A, Emili A.
Conf Proc IEEE Eng Med Biol Soc (2004) 4: 3055-9
msmsEval: Tandem mass spectral quality assignment for high-throughput proteomics
Wong JW, Sullivan MJ, Cartwright HM, Cagney G.
BMC Bioinformatics (2007) 8(1): 51
Estimation of membrane proteins in the human proteome
Ahram M, Litou ZI, Fang R, Al-Tawallbeh G.
In Silico Biol (2006) 6(5): 379-86
Predicting protein-protein interactions from protein domains using a set cover approach
Huang C, Morcos F, Kanaan SP, Wuchty S, Chen DZ, Izaguirre JA.
ACM Trans Comput Biol Bioinform (2007) 4(1): 78-87
Difference detection in LC-MS data for protein biomarker discovery
Listgarten J, Neal RM, Roweis ST, Wong P, Emili A.
Bioinformatics (2007) 23(2): e198-204
Modeling and characterization of multi-charge mass spectra for Peptide sequencing
Chong KF, Ning K, Leong HW, Pevzner P.
J Bioinform Comput Biol (2006) 4(6): 1329-52
Identification of novel peptide hormones in the human proteome by hidden Markov model screening
Mirabeau O, Perlas E, Severini C, Audero E, Gascuel O, Possenti R, Birney E, Rosenthal N, Gross C.
Genome Res Early Edition: published 6-Feb-2007
msmsEval: tandem mass spectral quality assignment for high-throughput proteomics
Wong JWH, Sullivan MJ, Cartwright HM, Cagney G
BMC Bioinformatics (2007) 8: 51
Lookup Peaks: A Hybrid of de Novo Sequencing and Database Search for Protein Identification by Tandem Mass Spectrometry
Marshall Bern, Yuhan Cai, and David Goldberg
ANALYTICAL CHEMISTRY (2007) 79(4): 1393-1400
Latent Periodicity of Protein Families, Identified with the Indel-Aware Algorithm
Andrew A. Laskin, Konstantin G. Skryabin, and Eugene V. Korotkov
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 862-868
Statistical Characterization of Chemical Noise in MALDI TOF MS by Wavelet Analysis of Multiple Noise Realizations
Shin H, Sampat M, Bish SF, Koomen JM, Markey MK.
AMIA Annu Symp Proc (2006) 1: 1092.
MascotDatfile: An open-source library to fully parse and analyse MASCOT MS/MS search results
Kenny Helsens, Lennart Martens, Joël Vandekerckhove, Kris Gevaert
PROTEOMICS (2007) 7(3): 364-366
Evaluation and comparison of mammalian subcellular localization prediction methods
Sprenger J, Fink JL, Teasdale RD.
BMC Bioinformatics (2006) 7(Suppl 5): S3
Identification of novel Cry1Ac binding proteins in midgut membranes from Heliothis virescens using proteomic analyses
Krishnamoorthy M, Jurat-Fuentes JL, McNall RJ, Andacht T, Adang MJ.
Insect Biochem Mol Biol (2007) 37(3): 189-201
Proteome Analysis of Chloroplast mRNA Processing and Degradation
Sacha Baginsky, Jonas Grossmann, and Wilhelm Gruissem
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 809-820
Arginine deficiency in preconfluent intestinal Caco-2 cells modulates expression of proteins involved in proliferation, apoptosis, and heat shock response
Kaatje Lenaerts, Johan Renes, Freek G. Bouwman, Jean-Paul Noben, Johan Robben, Egbert Smit, Edwin C. Mariman
PROTEOMICS (2007) 7(4): 565-577
Analysis of an Intact G-Protein Coupled Receptor by MALDI-TOF Mass Spectrometry: Molecular Heterogeneity of the Tachykinin NK-1 Receptor
Alves ID, Sachon E, Bolbach G, Millstine L, Lavielle S, Sagan S.
Anal Chem Early Edition: published 13-Feb-2007
A Useful Model to Audit Liver Resolution from Cirrhosis in Rats Using Functional Proteomics
Liu EH, Chen MF, Yeh TS, Ho YP, Wu RC, Chen TC, Jan YY, Pan TL.
J Surg Res Early Edition: published 8-Feb-2007
Insight into the virulence of Rickettsia prowazekii by proteomic analysis and comparison with an avirulent strain
Chao CC, Chelius D, Zhang T, Mutumanje E, Ching WM.
Biochim Biophys Acta Early Edition: published 17-Jan-2007
Effects of agricultural production systems and their components on protein profiles of potato tubers
Satu J. Lehesranta, Kaisa M. Koistinen, Nathalie Massat, Howard V. Davies, Louise V. T. Shepherd, James W. McNicol, Ismail Cakmak, Julia Cooper, Lorna Lück, Sirpa O. Kärenlampi, Carlo Leifert
PROTEOMICS (2007) 7(4): 597-604
The glucose and nitrogen starvation response of Bacillus licheniformis
Birgit Voigt, Le Thi Hoi, Britta Jürgen, Dirk Albrecht, Armin Ehrenreich, Birgit Veith, Stefan Evers, Karl-Heinz Maurer, Michael Hecker, Thomas Schweder
PROTEOMICS (2007) 7(3): 413-423
Qualitative and Quantitative Analyses of Protein Phosphorylation in Naive and Stimulated Mouse Synaptosomal Preparations
Richard P. Munton, Ry Tweedie-Cullen, Magdalena Livingstone-Zatchej, Franziska Weinandy, Marc Waidelich, Davide Longo, Peter Gehrig, Frank Potthast, Dorothea Rutishauser, Bertran Gerrits, Christian Panse, Ralph Schlapbach, and Isabelle M. Mansuy
Mol Cell Proteomics (2007) 6(2): 283-293
Structural and Functional Analysis of Hypothetical Proteins in Mouse Hippocampus from Two-Dimensional Gel Electrophoresis
Leila Afjehi-Sadat, Jae-Won Yang, Arnold Pollak, Dae-Won Kim, Soo-Young Choi, and Gert Lubec
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 711-723
iTRAQ Is a Useful Method To Screen for Membrane-Bound Proteins Differentially Expressed in Human Natural Killer Cell Types
Troy C. Lund, Lorraine B. Anderson, Valarie McCullar, LeeAnn Higgins, Gong H. Yun, Bartek Grzywacz, Michael R. Verneris, and Jeffrey S. Miller
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 644-653
Stability of Plant Defense Proteins in the Gut of Insect Herbivores
Chen H, Gonzales-Vigil E, Wilkerson CG, Howe GA.
Plant Physiol Early Edition: published 9-Feb-2007
Proteomics of Synechocystis sp. PCC 6803
Pisareva T, Shumskaya M, Maddalo G, Ilag L, Norling B.
FEBS J (2007) 274(3): 791-804
Proteomics Analysis and Protein Expression during Sporozoite Excystation of Cryptosporidium parvum (Coccidia, Apicomplexa)
William J. Snelling, Qishan Lin, John E. Moore, B. Cherie Millar, Fabio Tosini, Edoardo Pozio, James S. G. Dooley, and Colm J. Lowery
Mol Cell Proteomics (2007) 6(2): 346-355
Proteomic analysis of vascular endothelial cells in response to laminar shear stress
Xiao-Li Wang, Alex Fu, Sreekumar Raghavakaimal, Hon-Chi Lee
PROTEOMICS (2007) 7(4): 588-596
4-(Methylnitrosamino)-I-(3-Pyridyl)-1-Butanone Enhances the Expression of Apolipoprotein A-I and Clara Cell 17-kDa Protein in the Lung Proteomes of Rats Fed a Corn Oil Diet but not a Fish Oil Diet
Chang SI, El-Bayoumy K, Sinha I, Trushin N, Stanley B, Pittman B, Prokopczyk B.
Cancer Epidemiol Biomarkers Prev (2007) 16(2): 228-35
The Phosphorus Source Phytate Changes the Composition of the Cell Wall Proteome in Bacillus subtilis
Haike Antelmann, Stefanie Töwe, Dirk Albrecht, and Michael Hecker
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 897-903
Plant protein phosphorylation monitored by capillary liquid chromatography-element mass spectrometry
Kruger R, Wolschin F, Weckwerth W, Bettmer J, Lehmann WD.
Biochem Biophys Res Commun Early Edition: published 31-Jan-2007
Comparative proteomic and transcriptomic profiling of the fission yeast Schizosaccharomyces pombe
Schmidt MW, Houseman A, Ivanov AR, Wolf DA.
Mol Syst Biol (2007) 3: 79
Protein variations in Listeria monocytogenes exposed to sodium lactate, sodium diacetate, and their combination
Mbandi E, Phinney BS, Whitten D, Shelef LA.
J Food Prot (2007) 70(1): 58-64
Developmental Analysis of Maize Endosperm Proteome Suggests a Pivotal Role for PPDK
Mechin V, Thevenot C, Le Guilloux M, Prioul JL, Damerval C.
Plant Physiol Early Edition: published 19-Jan-2007
Interleukin-4 Inhibits Caspase-3 by Regulating Several Proteins in the Fas Pathway during Initial Stages of Human T Helper 2 Cell Differentiation
Kirsi J. Rautajoki, Elisa M. Marttila, Tuula A. Nyman, and Riitta Lahesmaa
Mol Cell Proteomics (2007) 6(2): 238-251
Proteomics of lipid oxidation-induced oxidation of porcine and bovine oxymyoglobins
Surendranath P. Suman, Cameron Faustman, Sheryl L. Stamer, Daniel C. Liebler
PROTEOMICS (2007) 7(4): 628-640
Two-Dimensional Fluorescence Difference Gel Electrophoresis Analysis of Spermatogenesis in the Rat
Antoine D. Rolland, Bertrand Evrard, Nathalie Guitton, Régis Lavigne, Pierre Calvel, Morgane Couvet, Bernard Jégou, and Charles Pineau
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 683-697
Proteomics Identification of Differentially Expressed Proteins Associated with Pollen Germination and Tube Growth Reveals Characteristics of Germinated Oryza sativa Pollen
Shaojun Dai, Taotao Chen, Kang Chong, Yongbiao Xue, Siqi Liu, and Tai Wang
Mol Cell Proteomics (2007) 6(2): 207-230
Translational and transcriptional analysis of Sulfolobus solfataricus P2 to provide insights into alcohol and ketone utilisation
Poh Kuan Chong, Adam M. Burja, Helia Radianingtyas, Alireza Fazeli, Phillip C. Wright
PROTEOMICS (2007) 7(3): 424-435
Proteomic analysis of SET-binding proteins
Jorge Vera, Josep M. Estanyol, Nuria Canela, Franc Llorens, Neus Agell, Emilio Itarte, Oriol Bachs, Montserrat Jaumot
PROTEOMICS (2007) 7(4): 578-587
A Functional Genomics Analysis of the B56 Isoforms of Drosophila Protein Phosphatase 2A
Wei Liu, Adam M. Silverstein, Hongjun Shu, Bobbie Martinez, and Marc C. Mumby
Mol Cell Proteomics (2007) 6(2): 319-332
Preliminary characterization of hemolymph coagulation in Anopheles gambiae larvae
Agianian B, Lesch C, Loseva O, Dushay MS.
Dev Comp Immunol Early Edition: published 25-Jan-2007
Proteomics of specific treatment-related alterations in Fabry disease: A strategy to identify biological abnormalities
Moore DF, Krokhin OV, Beavis RC, Ries M, Robinson C, Goldin E, Brady RO, Wilkins JA, Schiffmann R.
Proc Natl Acad Sci U S A Early Edition: published 14-Feb-2007
Proteomic and functional alterations in brain mitochondria from Tg2576 mice occur before amyloid plaque deposition
Frank Gillardon, Wolfgang Rist, Lothar Kussmaul, Johannes Vogel, Matthias Berg, Karin Danzer, Norbert Kraut, Bastian Hengerer
PROTEOMICS (2007) 7(4): 605-616
The proteome survey of an electricity-generating organ (Torpedo californica electric organ)
Javad Nazarian, Yetrib Hathout, Akos Vertes, Eric P. Hoffman
PROTEOMICS (2007) 7(4): 617-627
The identification of surface proteins of Burkholderia pseudomallei
Harding SV, Sarkar-Tyson M, Smither SJ, Atkins TP, Oyston PC, Brown KA, Liu Y, Wait R, Titball RW.
Vaccine Early Edition: published 26-Dec-2006
Identification of Actin as a 15-Deoxy-Delta(12,14)-prostaglandin J(2) Target in Neuroblastoma Cells: Mass Spectrometric, Computational, and Functional Approaches To Investigate the Effect on Cytoskeletal Derangement
Aldini G, Carini M, Vistoli G, Shibata T, Kusano Y, Gamberoni L, Dalle-Donne I, Milzani A, Uchida K.
Biochemistry Early Edition: published 13-Feb-2007
Identifying the membrane proteome of HIV-1 latently-infected cells
Berro R, de la Fuente C, Klase Z, Kehn K, Parvin L, Pumfrey A, Agbottah E, Vertes A, Nekhai S, Kashanchi F.
J Biol Chem Early Edition: published 19-Jan-2007
Insight into the host-parasite interplay by proteomic study of host proteins copurified with the human parasite, Schistosoma japonicum
Feng Liu, Wei Hu, Shu-Jian Cui, Ming Chi, Cai-Yun Fang, Zhi-Qin Wang, Peng-Yuan Yang, Ze-Guang Han
PROTEOMICS (2007) 7(3): 450-462
Identification of Secreted Proteins during Skeletal Muscle Development
X'avia C. Y. Chan, John C. McDermott, , and K. W. Michael Siu
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 698-710
Qualitative and Quantitative Evaluation of Protein Extraction Protocols for Apple and Strawberry Fruit Suitable for Two-Dimensional Electrophoresis and Mass Spectrometry Analysis
Zheng Q, Song J, Doncaster K, Rowland E, Byers DM.
J Agric Food Chem Early Edition: published 13-Feb-2007
Rapid Evolution Exposes the Boundaries of Domain Structure and Function in Natively Unfolded FG Nucleoporins
Daniel P. Denning and Michael F. Rexach
Mol Cell Proteomics (2007) 6(2): 272-282
Quantitative Proteomic and Microarray Analysis of the Archaeon Methanosarcina acetivorans Grown with Acetate versus Methanol
Lingyun Li, Qingbo Li, Lars Rohlin, UnMi Kim, Kirsty Salmon, Tomas Rejtar, Robert P. Gunsalus, Barry L. Karger, and James G. Ferry
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 759-771
Influence of Ki-ras-driven oncogenic transformation on the protein network of murine fibroblasts
Christian V. Recktenwald, Simone Mendler, Rudolf Lichtenfels, Roland Kellner, Barbara Seliger
PROTEOMICS (2007) 7(3): 385-398
Proteins Associated with Culex nigripalpus Nucleopolyhedrovirus (CuniNPV) Occluded Virions
Perera O, Green TB, Stevens SM Jr, White S, Becnel JJ.
J Virol Early Edition: published 14-Feb-2007
Systems biology approach to integrative comparative genomics
Jimmy Lin, Jiang Qian
Expert Review of Proteomics (2007) 4(1): 107-119
Modulation of p53 and MDM2 activity by novel interaction with Ras-GAP binding proteins (G3BP)
Kim MM, Wiederschain D, Kennedy D, Hansen E, Yuan ZM.
Oncogene Early Edition: published 5-Feb-2007
Proteome analysis of human macrophages reveals the upregulation of manganese-containing superoxide dismutase after toll-like receptor activation
Riitta Rakkola, Sampsa Matikainen, Tuula A. Nyman
PROTEOMICS (2007) 7(3): 378-384
Proteomic analysis of protein nitration in rat cerebellum: effect of biological aging
Gokulrangan G, Zaidi A, Michaelis ML, Schoneich C.
J Neurochem Early Edition: published 24-Jan-2007
Proteomics and electron microscopic characterization of the unusual mitochondrial ribosome-related 45S complex in Leishmania tarentolae
Maslov DA, Spremulli LL, Sharma MR, Bhargava K, Grasso D, Falick AM, Agrawal RK, Parker CE, Simpson L.
Mol Biochem Parasitol Early Edition: published 20-Jan-2007
Profiling the Membrane Proteome of Shewanella oneidensis MR-1 with New Affinity Labeling Probes
Xiaoting Tang, Wei Yi, Gerhard R. Munske, Devi P. Adhikari, Natalia L. Zakharova, and James E. Bruce
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 724-734
Proteomic Analysis of Tyrosine Phosphorylations in Vascular Endothelial Growth Factor- and Reactive Oxygen Species-Mediated Signaling Pathway
Young Mee Kim, Eun Joo Song, Jawon Seo, Hee-Jung Kim, and Kong-Joo Lee
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 593-601
Proteomics of experimental stroke in mice
Focking M, Besselmann M, Trapp T.
Acta Neurobiol Exp (Wars) (2006) 66(4): 273-8
Proteome Analysis of Serum from Type 2 Diabetics with Nephropathy
Hyun-Jung Kim, Eun-Hee Cho, Ji-Hye Yoo, Pan-Kyeom Kim, Jun-Seop Shin, Mi-Ryung Kim, and Chan-Wha Kim
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 735-743
Campylobacter jejuni proteomics for new travellers' diarrhoea vaccines
Schrotz-King P, Prokhorova TA, Nielsen PN, Crawford JS, Morsczeck C.
Travel Med Infect Dis (2007) 5(2): 106-9
Proteomic Signature Corresponding to the Response to Gefitinib (Iressa, ZD1839), an Epidermal Growth Factor Receptor Tyrosine Kinase Inhibitor in Lung Adenocarcinoma
Okano T, Kondo T, Fujii K, Nishimura T, Takano T, Ohe Y, Tsuta K, Matsuno Y, Gemma A, Kato H, Kudoh S, Hirohashi S.
Clin Cancer Res (2007) 13(3): 799-805
Identification of Cellular Interaction Partners of the Influenza Virus Ribonucleoprotein Complex and Polymerase Complex Using Proteomic-Based Approaches
Daniel Mayer, Kaaweh Molawi, Luis Martínez-Sobrido, Alexander Ghanem, Stefan Thomas, Sacha Baginsky, Jonas Grossmann, Adolfo García-Sastre, and Martin Schwemmle
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 672-682
Recent technical strategies to identify diagnostic biomarkers for ovarian cancer
Bin Ye, Audrey Gagnon, Samuel C Mok
Expert Review of Proteomics (2007) 4(1): 121-131
Surface-enhanced laser desorption/ionization time-of-flight mass spectrometry (SELDI-TOF MS) for determining prognosis in advanced stage hormone relapsing prostate cancer
Kohli M, Siegel E, Bhattacharya S, Khan MA, Shah R, Suva LJ.
Cancer Biomark (2006) 2(6): 249-58
Identification of differentially regulated proteins in a patient with Leber's Congenital Amaurosis - A proteomic study
Vorum H, Ostergaard M, Rice G, Honore B, Bek T
Proteome Science (2007) 5: 5
Halothane Binding Proteome in Human Brain Cortex
Jonathan Z. Pan, Jin Xi, John W. Tobias, Maryellen F. Eckenhoff, and Roderic G. Eckenhoff
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 582-592
Altered protein expression at early stage rat hepatic neoplasia
Luo Q, Siconolfi-Baez L, Annamaneni P, Bielawski MT, Novikoff PM, Angeletti R.
Am J Physiol Gastrointest Liver Physiol Early Edition: published 1-Feb-2007
Biomarkers and Diagnosis; Protein Biomarkers in Serum of Pediatric Patients with Severe Traumatic Brain Injury Identified by ICAT-LC-MS/MS
Haqqani AS, Hutchison JS, Ward R, Stanimirovic DB.
J Neurotrauma (2007) 24(1): 54-74
Multiplexed Proteomic Analysis of Oxidation and Concentrations of Cerebrospinal Fluid Proteins in Alzheimer Disease
Korolainen MA, Nyman TA, Nyyssonen P, Hartikainen ES, Pirttila T.
Clin Chem Early Edition: published 8-Feb-2007
Proteomics in the study of organ dysfunction
Xiangdong Wang
Expert Review of Proteomics (2007) 4(1): 1-3
Up-regulation of Tumor Susceptibility Gene 101 Protein in Ovarian Carcinomas Revealed by Proteomics Analyses
Travis W. Young, Fang C. Mei, Daniel G. Rosen, Gong Yang, Nan Li, Jinsong Liu, and Xiaodong Cheng
Mol Cell Proteomics (2007) 6(2): 294-304
Circulating Human Monocytes in the Acute Coronary Syndrome Express a Characteristic Proteomic Profile
María G. Barderas, José Tuñón, Verónica M. Dardé, Fernando De la Cuesta, María C. Dur n, José J. Jiménez-N cher, Nieves Tarín,O Lorenzo López-Bescós, Jesús Egido, and Fernando Vivanco
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 876-886
Identification of leptomeningeal metastasis-related proteins in cerebrospinal fluid of patients with breast cancer by a combination of MALDI-TOF, MALDI-FTICR and nanoLC-FTICR MS
Andreas Römpp, Lennard Dekker, Ioana Taban, Guido Jenster, Willem Boogerd, Hans Bonfrer, Bernhard Spengler, Ron Heeren, Peter Sillevis Smitt, Theo M. Luider
PROTEOMICS (2007) 7(3): 474-481
Proteomics and metabolomics combined in cardiovascular research
Mayr M, Madhu B, Xu Q.
Trends Cardiovasc Med (2007) 17(2): 43-8
Galectin-1 expression in cancer-associated stromal cells correlates tumor invasiveness and tumor progression in breast cancer
Jung EJ, Moon HG, Cho BI, Jeong CY, Joo YT, Lee YJ, Hong SC, Choi SK, Ha WS, Kim JW, Lee CW, Lee JS, Park ST.
Int J Cancer Early Edition: published 15-Feb-2007
Urinary proteomics: a tool to discover biomarkers of kidney diseases
Hassan Dihazi, Gerhard A Muller
Expert Review of Proteomics (2007) 4(1): 39-50
Identification of Putative Androgen Receptor Interaction Protein Modules: Cytoskeleton and Endosomes Modulate Androgen Receptor Signaling in Prostate Cancer Cells
Rohini Jasavala, Harryl Martinez, Jaykumar Thumar, Armann Andaya, Anne-Claude Gingras, Jimmy K. Eng, Ruedi Aebersold, David K. Han, and Michael E. Wright
Mol Cell Proteomics (2007) 6(2): 252-271
Urine Biomarkers Predict the Cause of Glomerular Disease
Varghese SA, Powell TB, Budisavljevic MN, Oates JC, Raymond JR, Almeida JS, Arthur JM.
J Am Soc Nephrol Early Edition: published 14-Feb-2007
Clinical Proteomics: Opportunities for Diagnostics, Pharmaceuticals and the Clinical Laboratory
Feng Tao, Alexander Lazarev
Expert Review of Proteomics (2007) 4(1): 9-11
Pre-analytic saliva processing affect proteomic results and biomarker screening of head and neck squamous carcinoma
Ohshiro K, Rosenthal DI, Koomen JM, Streckfus CF, Chambers M, Kobayashi R, El-Naggar AK.
Int J Oncol (2007) 30(3): 743-9
Biomarkers and Diagnosis; A Gel-Based Proteomic Comparison of Human Cerebrospinal Fluid between Inflicted and Non-Inflicted Pediatric Traumatic Brain Injury
Gao WM, Chadha MS, Berger RP, Omenn GS, Allen DL, Pisano M, Adelson PD, Clark RS, Jenkins LW, Kochanek PM.
J Neurotrauma (2007) 24(1): 43-53
Changes in albumin precursor and heat shock protein 70 expression and their potential role in response to corneal epithelial wound repair
Shamim Mushtaq, Zulfiqar A. Naqvi, Anwar A. Siddiqui, Carina Palmberg, Jawed Shafqat, Nikhat Ahmed
PROTEOMICS (2007) 7(3): 463-468
Identification of Platinum-Resistance Associated Proteins through Proteomic Analysis of Human Ovarian Cancer Cells and Their Platinum-Resistant Sublines
Xue-dong Yan Ling-ya Pan Ye Yuan Jing-he Lang Ning Mao
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 772-780
Mass Spectrometry-Based Hepcidin Measurements in Serum and Urine: Analytical Aspects and Clinical Implications
Kemna EH, Tjalsma H, Podust VN, Swinkels DW.
Clin Chem Early Edition: published 1-Feb-2007
A combined dataset of human cerebrospinal fluid proteins identified by multi-dimensional chromatography and tandem mass spectrometry
Sheng Pan, David Zhu, Joseph F. Quinn, Elaine R. Peskind, Thomas J. Montine, Biaoyang Lin, David R. Goodlett, Greg Taylor, Jimmy Eng, Jing Zhang
PROTEOMICS (2007) 7(3): 469-473
Proteomic Investigation of Glioblastoma Cell Lines Treated with Wild-Type p53 and Cytotoxic Chemotherapy Demonstrates an Association between Galectin-1 and p53 Expression
Maja Puchades, Carol L. Nilsson, Mark R. Emmett, Kenneth D. Aldape, Yongjie Ji, Frederick F. Lang, Ta-Jen Liu, and Charles A. Conrad
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 869-875
THE SALIVARY PROTEOME AND ITS GENETIC POLYMORPHISMS
Oppenheim FG, Salih E, Siqueira WL, Zhang W, Helmerhorst EJ.
Ann N Y Acad Sci Early Edition: published 15-Feb-2007
Investigational agents against platinum-resistant ovarian cancer
Lorusso D, Ferrandina G, Fanfani F, Gagliardi ML, Scambia G.
Expert Opin Investig Drugs (2007) 16(3): 325-336
Initial care of the severely injured patient: Predicting morbidity from sub-clinical findings and clinical proteomics
Giannoudis PV, Fogerty S.
Injury Early Edition: published 9-Feb-2007
Identification of Tumor Antigens in Human Lung Squamous Carcinoma by Serological Proteome Analysis
Fang Yang, Zhi-qiang Xiao, Xiu-zhi Zhang, Cui Li, Peng-fei Zhang, Mao-yu Li, Ying Chen, Ge-qin Zhu, Yi Sun, Ying-fu Liu, and Zhu-chu Chen
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 751-758
Prevention and early detection of ovarian cancer: mission impossible?
Bast RC Jr, Brewer M, Zou C, Hernandez MA, Daley M, Ozols R, Lu K, Lu Z, Badgwell D, Mills GB, Skates S, Zhang Z, Chan D, Lokshin A, Yu Y.
Recent Results Cancer Res (2007) 174: 91-100
Protein Profiling of Microdissected Pancreas Carcinoma and Identification of HSP27 as a Potential Serum Marker
Melle C, Ernst G, Escher N, Hartmann D, Schimmel B, Bleul A, Thieme H, Kaufmann R, Felix K, Friess HM, Settmacher U, Hommann M, Richter KK, Daffner W, Taubig H, Manger T, Claussen U, von Eggeling F.
Clin Chem Early Edition: published 15-Feb-2007
Proteome analysis of new antimalarial endoperoxide against Plasmodium falciparum
Aly NS, Hiramoto A, Sanai H, Hiraoka O, Hiramoto K, Kataoka H, Wu JM, Masuyama A, Nojima M, Kawai S, Kim HS, Wataya Y.
Parasitol Res Early Edition: published 2-Feb-2007
SELDI-TOF MS Profiling of Plasma Proteins in Ovarian Cancer
Wu SP, Lin YW, Lai HC, Chu TY, Kuo YL, Liu HS.
Taiwan J Obstet Gynecol (2006) 45(1): 26-32
A cancer protein microarray platform using antibody fragments and its clinical applications
Song S, Li B, Wang L, Wu H, Hu J, Li M, Fan C.
Mol Biosyst (2007) 3(2): 151-8
Plasma proteomics of pancreatic cancer patients by multi-dimensional liquid chromatography and two-dimensional difference gel electrophoresis (2D-DIGE): Up-regulation of leucine-rich alpha-2-glycoprotein in pancreatic cancer
Kakisaka T, Kondo T, Okano T, Fujii K, Honda K, Endo M, Tsuchida A, Aoki T, Itoi T, Moriyasu F, Yamada T, Kato H, Nishimura T, Todo S, Hirohashi S.
J Chromatogr B Analyt Technol Biomed Life Sci Early Edition: published 1-Feb-2007
Breast cancer proteomics: clinical perspectives
Lau TY, O'Connor DP, Brennan DJ, Duffy MJ, Pennington SR, Gallagher WM.
Expert Opin Biol Ther (2007) 7(2): 209-19
{alpha}1-Antitrypsin Precursor in Gastric Juice Is a Novel Biomarker for Gastric Cancer and Ulcer
Hsu PI, Chen CH, Hsieh CS, Chang WC, Lai KH, Lo GH, Hsu PN, Tsay FW, Chen YS, Hsiao M, Chen HC, Lu PJ.
Clin Cancer Res (2007) 13(3): 876-83
Discovery of Candidate Tumor Markers for Prostate Cancer via Proteomic Analysis of Cell Culture-Conditioned Medium
Sardana G, Marshall J, Diamandis EP.
Clin Chem Early Edition: published 26-Jan-2007
Proteomic Identification and Immunolocalization of Increased Renal Calbindin-D28k Expression in OVE26 Diabetic Mice
Thongboonkerd V, Zheng S, McLeish KR, Epstein PN, Klein JB.
Rev Diabet Stud (2005) 2(1): 19-26
Lung cancer staging: proteomics
Harpole DH, Meyerson SL.
Thorac Surg Clin (2006) 16(4): 339-43
Overexpression of Biglycan in the Heart of Transgenic Mice: An Antibody Microarray Study
Erika Bereczki, Szilvia Gonda, Tam s Csont, Eva Korpos, Agnes Zvara, Péter Ferdinandy, and Miklós S ntha
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 854-861
Application of clinical proteomics in diagnosis and management of trauma patients
Alpantaki K, Tsiridis E, Pape HC, Giannoudis PV.
Injury Early Edition: published 7-Feb-2007
Proteomic Comparison of Oligodendrogliomas with and without 1pLOH
Okamoto H, Li J, Glasker S, Vortmeyer AO, Jaffe H, Robison RA, Bogler O, Mikkelsen T, Lubensky IA, Oldfield EH, Zhuang Z.
Cancer Biol Ther Early Edition: published 20-Mar-2007
Biomarker discovery for inflammatory bowel disease, using proteomic serum profiling
Meuwis MA, Fillet M, Geurts P, de Seny D, Lutteri L, Chapelle JP, Bours V, Wehenkel L, Belaiche J, Malaise M, Louis E, Merville MP.
Biochem Pharmacol Early Edition: published 20-Dec-2006
Opportunities and limitations of SELDI-TOF-MS in biomedical research: practical advices
Terence CW Poon
Expert Review of Proteomics (2007) 4(1): 51-65
Comparative proteomics of small cell lung carcinoma
Ziv T, Barnea E, Segal H, Sharon R, Beer I, Admon A.
Cancer Biomark (2006) 2(6): 219-34
Proteomic Identification of Biomarkers in the Cerebrospinal Fluid (CSF) of Astrocytoma Patients
Fatima W. Khwaja, Matthew S. Reed, Jeffrey J. Olson, Brian J. Schmotzer, G. Yancey Gillespie, Abhijit Guha, Morris D. Groves, Santosh Kesari, Jan Pohl, and Erwin G. Van Meir
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 559-570
Proteomics on the diagnostic horizon: lessons from rheumatology
Wu T, Mohan C.
Am J Med Sci (2007) 333(1): 16-25
Combination of SELDI-TOF-MS and Data Mining Provides Early-stage Response Prediction for Rectal Tumors Undergoing Multimodal Neoadjuvant Therapy
Smith FM, Gallagher WM, Fox E, Stephens RB, Rexhepaj E, Petricoin EF 3rd, Liotta L, Kennedy MJ, Reynolds JV.
Ann Surg (2007) 245(2): 259-266
Characterization of immune complexes of idiotypic catalytic and anti-idiotypic inhibitory antibodies in plasma of type 1 diabetic subjects
Pagetta A, Tramentozzi E, Corbetti L, Frasson M, Brunati AM, Finotti P.
Mol Immunol Early Edition: published 11-Feb-2007
Proteomic analysis of steroid-triggered autophagic programmed cell death during Drosophila development
Martin DN, Balgley B, Dutta S, Chen J, Rudnick P, Cranford J, Kantartzis S, Devoe DL, Lee C, Baehrecke EH.
Cell Death Differ Early Edition: published 26-Jan-2007
The human urine mannose 6-phosphate glycoproteome
Sleat DE, Zheng H, Lobel P.
Biochim Biophys Acta Early Edition: published 20-Dec-2006
Identification of Glycinin and beta-Conglycinin Subunits that Contribute to the Increased Protein Content of High-Protein Soybean Lines
Krishnan HB, Natarajan SS, Mahmoud AA, Nelson RL.
J Agric Food Chem Early Edition: published 1-Feb-2007
Identification of Secreted Proteins during Skeletal Muscle Development
X'avia C. Y. Chan, John C. McDermott, , and K. W. Michael Siu
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 698-710
Proteome map of Aspergillus nidulans during osmoadaptation
Kim Y, Nandakumar MP, Marten MR.
Fungal Genet Biol Early Edition: published 25-Jan-2007
Two-Dimensional Fluorescence Difference Gel Electrophoresis Analysis of Spermatogenesis in the Rat
Antoine D. Rolland, Bertrand Evrard, Nathalie Guitton, Régis Lavigne, Pierre Calvel, Morgane Couvet, Bernard Jégou, and Charles Pineau
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 683-697
An insight into the sialome of the adult female mosquito Aedes albopictus
Arca B, Lombardo F, Francischetti IM, Pham VM, Mestres-Simon M, Andersen JF, Ribeiro JM.
Insect Biochem Mol Biol (2007) 37(2): 107-127
Physiological proteomics of the uncultured endosymbiont of Riftia pachyptila
Markert S, Arndt C, Felbeck H, Becher D, Sievert SM, Hugler M, Albrecht D, Robidart J, Bench S, Feldman RA, Hecker M, Schweder T.
Science (2007) 315(5809): 247-50
Spatial mapping of protein abundances in the mouse brain by voxelation integrated with high-throughput liquid chromatography-mass spectrometry
Petyuk VA, Qian WJ, Chin MH, Wang H, Livesay EA, Monroe ME, Adkins JN, Jaitly N, Anderson DJ, Camp DG 2nd, Smith DJ, Smith RD.
Genome Res Early Edition: published 25-Jan-2007
Proteomic analysis of the major soluble components in Annurca apple flesh
Guarino C, Arena S, De Simone L, D'Ambrosio C, Santoro S, Rocco M, Scaloni A, Marra M.
Mol Nutr Food Res (2007) 51(2): 255-262
Structural and Functional Analysis of Hypothetical Proteins in Mouse Hippocampus from Two-Dimensional Gel Electrophoresis
Leila Afjehi-Sadat, Jae-Won Yang, Arnold Pollak, Dae-Won Kim, Soo-Young Choi, and Gert Lubec
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 711-723
Halothane Binding Proteome in Human Brain Cortex
Jonathan Z. Pan, Jin Xi, John W. Tobias, Maryellen F. Eckenhoff, and Roderic G. Eckenhoff
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 582-592
Proteomic analysis of cast cuticles from Anopheles gambiae by tandem mass spectrometry
He N, Botelho JM, McNall RJ, Belozerov V, Augustine Dunn W, Mize T, Orlando R, Willis JH.
Insect Biochem Mol Biol (2007) 37(2): 135-46
A glycoproteome database of normal human liver tissue
Zhou HJ, Liu YK, Chui JF, Sun QL, Lu WJ, Guo K, Jin H, Wei LM, Yang PY.
J Cancer Res Clin Oncol Early Edition: published 12-Jan-2007
Seminal fluid characterization for male fertility and prostate cancer: kallikrein-related serine proteases and whole proteome approaches
Veveris-Lowe TL, Kruger SJ, Walsh T, Gardiner RA, Clements JA.
Semin Thromb Hemost (2007) 33(1): 87-99
Proteomic analysis and characterisation of human cervico-vaginal fluid proteins
DI Quinzio MK, Oliva K, Holdsworth SJ, Ayhan M, Walker SP, Rice GE, Georgiou HM, Permezel M.
Aust N Z J Obstet Gynaecol (2007) 47(1): 9-15
Global changes in the hippocampal proteome following exposure to an enriched environment
McNair K, Broad J, Riedel G, Davies CH, Cobb SR.
Neuroscience Early Edition: published 26-Jan-2007
Quantitative membrane proteomics reveals new cellular targets of viral immune modulators
Bartee E, McCormack A, Fruh K.
PLoS Pathog (2006) 2(10): e107
Proteomic and Transcriptomic Analyses of Retinal Pigment Epithelial Cells Exposed to REF-1/TFPI-2
Shibuya M, Okamoto H, Nozawa T, Utsumi J, Reddy VN, Echizen H, Tanaka Y, Iwata T.
Invest Ophthalmol Vis Sci (2007) 48(2): 516-21
Comprehensive Peptidome Analysis of Mouse Livers by Size Exclusion Chromatography Prefractionation and NanoLC-MS/MS Identification
Lianghai Hu, Xin Li, Xinning Jiang, Houjiang Zhou, Xiaogang Jiang, Liang Kong, Mingliang Ye, and Hanfa Zou
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 801-808
Neuronal apoptosis mediated by inhibition of intracellular cholesterol transport: Microarray and proteomics analyses in cultured murine cortical neurons
Koh CH, Peng ZF, Ou K, Melendez A, Manikandan J, Qi RZ, Cheung NS.
J Cell Physiol Early Edition: published 23-Jan-2007
Dose-dependent modulation of the T cell proteome by ascorbic acid
Grant MM, Mistry N, Lunec J, Griffiths HR.
Br J Nutr (2007) 97(1): 19-26
Changes in salivary proteome following allogeneic hematopoietic stem cell transplantation
Imanguli MM, Atkinson JC, Harvey KE, Hoehn GT, Ryu OH, Wu T, Kingman A, Barrett AJ, Bishop MR, Childs RW, Fowler DH, Pavletic SZ, Hart TC.
Exp Hematol (2007) 35(2): 184-92
Does the serum peptidome reveal hemostatic dysregulation?
Davis MT, Patterson SD.
Ernst Schering Res Found Workshop (2007) (61): 23-44
Proteomic analysis of erythroid differentiation induced by hexamethylene bisacetamide in murine erythroleukemia cells
Petrak J, Myslivcova D, Man P, Cmejlova J, Cmejla R, Vyoral D.
Exp Hematol (2007) 35(2): 193-202
Proteomic Analysis of the Aging-related Proteins in Human Normal Colon Epithelial Tissue
Li M, Xiao ZQ, Chen ZC, Li JL, Li C, Zhang PF, Li MY.
J Biochem Mol Biol (2007) 40(1): 72-81
Identification of Major Sporulation Proteins of Myxococcus xanthus Using a Proteomic Approach
Dahl JL, Tengra FK, Dutton D, Yan J, Andacht TM, Coyne L, Windell V, Garza AG.
J Bacteriol Early Edition: published 9-Feb-2007
Global analysis of community-associated methicillin-resistant Staphylococcus aureus exoproteins reveals molecules produced in vitro and during infection
Burlak C, Hammer CH, Robinson MA, Whitney AR, McGavin MJ, Kreiswirth BN, Deleo FR.
Cell Microbiol Early Edition: published 9-Jan-2007
Proteomic analyses of the photoauto- and diazotrophically grown cyanobacterium Nostoc sp. PCC 73102
Ran L, Huang F, Ekman M, Klint J, Bergman B.
Microbiology (2007) 153(Pt 2): 608-618
Outer membrane proteome of Prevotella intermedia 17: Identification of thioredoxin and iron-repressible hemin uptake loci
Fan Yu, Cecilia Anaya, Janina P. Lewis
PROTEOMICS (2007) 7(3): 403-412
Characterization of extracellular proteins produced by Aeromonas hydrophila AH-1
Hong Bing Yu, Rasvinder Kaur, Simin Lim, Xian Hui Wang, Ka Yin Leung
PROTEOMICS (2007) 7(3): 436-449
Experimental determination of translational starts using peptide mass mapping and tandem mass spectrometry within the proteome of Mycobacterium tuberculosis
Rison SC, Mattow J, Jungblut PR, Stoker NG.
Microbiology (2007) 153(Pt 2): 521-8
The Phosphorus Source Phytate Changes the Composition of the Cell Wall Proteome in Bacillus subtilis
Haike Antelmann, Stefanie Töwe, Dirk Albrecht, and Michael Hecker
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 897-903
Translational and transcriptional analysis of Sulfolobus solfataricus P2 to provide insights into alcohol and ketone utilisation
Poh Kuan Chong, Adam M. Burja, Helia Radianingtyas, Alireza Fazeli, Phillip C. Wright
PROTEOMICS (2007) 7(3): 424-435
An iTRAQ-Based Quantitative Analysis To Elaborate the Proteomic Response of Nostoc sp. PCC 7120 under N2 Fixing Conditions
Karin Stensjö, Saw Yen Ow, Martin E. Barrios-Llerena, Peter Lindblad, and Phillip C. Wright
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 621-635
Bacterial outer membrane protein analysis by electrophoresis and microchip technology
Ildiko Kustos, Bela Kocsis, Ferenc Kilar
Expert Review of Proteomics (2007) 4(1): 91-106
Chromosomal His-tagging: An alternative approach to membrane protein purification
Laurent Mamelli, Luc Dedieu, Emmanuelle Dé, Michael E. Konkel, Jean-Marie Pagès, Jean-Michel Bolla
PROTEOMICS (2007) 7(3): 399-402
Profiling the Membrane Proteome of Shewanella oneidensis MR-1 with New Affinity Labeling Probes
Xiaoting Tang, Wei Yi, Gerhard R. Munske, Devi P. Adhikari, Natalia L. Zakharova, and James E. Bruce
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 724-734
Two-dimensional Blue Native/SDS Gel Electrophoresis of Multiprotein Complexes from Helicobacter pylori
Slovenie Pyndiah, Jean Paul Lasserre, Armelle Menard, Stephane Claverol, Valerie Prouzet-Mauleon, Francis Megraud, Frank Zerbib, and Marc Bonneu
Mol Cell Proteomics (2007) 6(2): 193-206
Microbiology. A proteomic snapshot of life at a vent
Fisher CR, Girguis P.
Science (2007) 315(5809): 198-9
The glucose and nitrogen starvation response of Bacillus licheniformis
Birgit Voigt, Le Thi Hoi, Britta Jürgen, Dirk Albrecht, Armin Ehrenreich, Birgit Veith, Stefan Evers, Karl-Heinz Maurer, Michael Hecker, Thomas Schweder
PROTEOMICS (2007) 7(3): 413-423
Insight into the virulence of Rickettsia prowazekii by proteomic analysis and comparison with an avirulent strain
Chao CC, Chelius D, Zhang T, Mutumanje E, Ching WM.
Biochim Biophys Acta Early Edition: published 17-Jan-2007
A proteomic study of Corynebacterium glutamicum AAA+ protease FtsH
Ludke A, Kramer R, Burkovski A, Schluesener D, Poetsch A.
BMC Microbiol (2007) 7(1): 6
Optimization of protein expression systems for modern drug discovery
Michael Forstner, Lukas Leder, Lorenz M Mayr
Expert Review of Proteomics (2007) 4(1): 67-78
Proteomics analysis of the proliferative effect of low-dose ouabain on human endothelial cells
Qiu J, Gao HQ, Zhou RH, Liang Y, Zhang XH, Wang XP, You BA, Cheng M.
Biol Pharm Bull (2007) 30(2): 247-53
Proteomic Analysis of the Effects of Tetramethylpyrazine on Irradiated QXMSC1 Cells
Ma ZC, Tan HL, Xiao CR, Wang YG, Wang SQ, Gao Y.
Biol Pharm Bull (2007) 30(2): 397-402
Proteomic analysis of the venom from the scorpion Tityus stigmurus: Biochemical and physiological comparison with other Tityus species
Batista CV, Roman-Gonzalez SA, Salas-Castillo SP, Zamudio FZ, Gomez-Lagunas F, Possani LD.
Comp Biochem Physiol C Toxicol Pharmacol Early Edition: published 16-Dec-2006
Fluorescence-based analysis of cellular protein lysate arrays using quantum dots
Geho DH, Killian JK, Nandi A, Pastor J, Gurnani P, Rosenblatt KP.
Methods Mol Biol (2007) 374: 229-38
Infrared-based protein detection arrays for quantitative proteomics
Christian Loebke, Holger Sueltmann, Christian Schmidt, Frauke Henjes, Stefan Wiemann, Annemarie Poustka, Ulrike Korf
PROTEOMICS (2007) 7(4): 558-564
Label-free Kinase Profiling Using Phosphate Affinity Polyacrylamide Gel Electrophoresis
Emiko Kinoshita-Kikuta, Yuri Aoki, Eiji Kinoshita, and Tohru Koike
Mol Cell Proteomics (2007) 6(2): 356-366
Establishment of serum protein pattern for screening colorectal cancer using SELDI-TOF-MS
Zheng GX, Wang CX, Qu X, Deng XM, Deng BP, Zhang J.
Exp Oncol (2006) 28(4): 282-7
Preanalytic Influence of Sample Handling on SELDI-TOF Serum Protein Profiles
Timms JF, Arslan-Low E, Gentry-Maharaj A, Luo Z, T'jampens D, Podust VN, Ford J, Fung ET, Gammerman A, Jacobs I, Menon U.
Clin Chem Early Edition: published 15-Feb-2007
Screening the human serum proteome for genotype-phenotype associations: An analysis of the IL6 -174G>C polymorphism
Christine M. Hegedus, Christine F. Skibola, Paige Bracci, Elizabeth A. Holly, Martyn T. Smith
PROTEOMICS (2007) 7(4): 548-557
Overexpression of Biglycan in the Heart of Transgenic Mice: An Antibody Microarray Study
Erika Bereczki, Szilvia Gonda, Tam s Csont, Eva Korpos, Agnes Zvara, Péter Ferdinandy, and Miklós S ntha
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 854-861
A cancer protein microarray platform using antibody fragments and its clinical applications
Song S, Li B, Wang L, Wu H, Hu J, Li M, Fan C.
Mol Biosyst (2007) 3(2): 151-8
Nanochips for mining the serum and tumor proteome: novel nanochips for sensitive and reproducible identification of the low molecular weight proteome in serum isolated from mice bearing highly invasive human breast tumor xenografts
Robertson FM, Ming-Cheng Cheng M, Prosperi JR, Gaspari M, Terracciano R, Green-Church KB, Vandre DD, Cuda G, Ferrari M.
Nanomedicine (2006) 2(4): 295
Design of atto-vial based recombinant antibody arrays combined with a planar wave-guide detection system
Sara Ghatnekar-Nilsson, Linda Dexlin, Christer Wingren, Lars Montelius, Carl A. K. Borrebaeck
PROTEOMICS (2007) 7(4): 540-547
Analysis and robot pipelined automation for SELDI-TOF mass spectrometry
Alterovitz G, Aivado M, Spentzos D, Libermann T, Ramoni M, Kohane I.
Conf Proc IEEE Eng Med Biol Soc (2004) 4: 3068-71
GlycoPep DB: A Tool for Glycopeptide Analysis Using a "Smart Search"
Eden P. Go, Kathryn R. Rebecchi, Dilusha S. Dalpathado, Mary L. Bandu, Ying Zhang, and Heather Desaire
ANALYTICAL CHEMISTRY (2007) 79(4): 1708-1713
Quantitative proteomic approaches for studying phosphotyrosine signaling
Shi-Jian Ding, Wei-Jun Qian, Richard D Smith
Expert Review of Proteomics (2007) 4(1): 13-23
Application of electron transfer dissociation mass spectrometry in analyses of non-enzymatically glycated peptides
Qibin Zhang, Andrej Frolov, Ning Tang, Ralf Hoffmann, Tom van de Goor, Thomas O. Metz, Richard D. Smith
Rapid Communications in Mass Spectrometry (2007) 21(5): 661-666
A Model for the Recognition of Protein Kinases Based on the Entropy of 3D van der Waals Interactions
Humberto Gonz lez-Díaz, Liane Saiz-Urra, Reinaldo Molina, Lourdes Santana, and Eugenio Uriarte
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 904-908
Capsaicin induces cofilin dephosphorylation in human intestinal cells: The triggering role of cofilin in tight-junction signaling
Nagumo Y, Han J, Arimoto M, Isoda H, Tanaka T.
Biochem Biophys Res Commun Early Edition: published 7-Feb-2007
Latent Periodicity of Protein Families, Identified with the Indel-Aware Algorithm
Andrew A. Laskin, Konstantin G. Skryabin, and Eugene V. Korotkov
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 862-868
Analysis of an Intact G-Protein Coupled Receptor by MALDI-TOF Mass Spectrometry: Molecular Heterogeneity of the Tachykinin NK-1 Receptor
Alves ID, Sachon E, Bolbach G, Millstine L, Lavielle S, Sagan S.
Anal Chem Early Edition: published 13-Feb-2007
Identification of N-Linked Glycosylation Sites Using Glycoprotein Digestion with Pronase Prior to MALDI Tandem Time-of-Flight Mass Spectrometry
Ying Qing Yu, Jennifer Fournier, Martin Gilar, and John C. Gebler
ANALYTICAL CHEMISTRY (2007) 79(4): 1731-1738
Bidimensional Tandem Mass Spectrometry for Selective Identification of Nitration Sites in Proteins
Angela Amoresano, Giovanni Chiappetta, Piero Pucci, Marco D'Ischia, and Gennaro Marino
ANALYTICAL CHEMISTRY (2007) 79(5): 2109-2117
Large-Scale Unrestricted Identification of Post-Translation Modifications Using Tandem Mass Spectrometry
Moshe Havilio Assaf Wool
ANALYTICAL CHEMISTRY (2007) 79(4): 1362-1368
A glycoproteome database of normal human liver tissue
Zhou HJ, Liu YK, Chui JF, Sun QL, Lu WJ, Guo K, Jin H, Wei LM, Yang PY.
J Cancer Res Clin Oncol Early Edition: published 12-Jan-2007
Exploring the specificity of the PI3K family inhibitor LY294002
Gharbi SI, Zvelebil MJ, Shuttleworth SJ, Hancox T, Saghir N, Timms JF, Waterfield MD.
Biochem J Early Edition: published 15-Feb-2007
Proteomic Analysis of Tyrosine Phosphorylations in Vascular Endothelial Growth Factor- and Reactive Oxygen Species-Mediated Signaling Pathway
Young Mee Kim, Eun Joo Song, Jawon Seo, Hee-Jung Kim, and Kong-Joo Lee
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 593-601
Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry
Molina H, Horn DM, Tang N, Mathivanan S, Pandey A.
Proc Natl Acad Sci U S A Early Edition: published 7-Feb-2007
Protein Family Classification with Partial Least Squares
Stephen O. Opiyo and Etsuko N. Moriyama
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 846-853
Selective Enrichment and Fractionation of Phosphopeptides from Peptide Mixtures by Isoelectric Focusing after Methyl Esterification
Chong-Feng Xu, Huaibin Wang, Daming Li, Xiang-Peng Kong, and Thomas A. Neubert
ANALYTICAL CHEMISTRY (2007) 79(5): 2007-2014
The human urine mannose 6-phosphate glycoproteome
Sleat DE, Zheng H, Lobel P.
Biochim Biophys Acta Early Edition: published 20-Dec-2006
Plant protein phosphorylation monitored by capillary liquid chromatography-element mass spectrometry
Kruger R, Wolschin F, Weckwerth W, Bettmer J, Lehmann WD.
Biochem Biophys Res Commun Early Edition: published 31-Jan-2007
Reproducible isolation of distinct, overlapping segments of the phosphoproteome
Bodenmiller B, Mueller LN, Mueller M, Domon B, Aebersold R.
Nat Methods Early Edition: published 11-Feb-2007
Fe3+ immobilized metal affinity chromatography with silica monolithic capillary column for phosphoproteome analysis
Shun Feng, Chensong Pan, Xiaogang Jiang, Songyu Xu, Houjiang Zhou, Mingliang Ye, Hanfa Zou
PROTEOMICS (2007) 7(3): 351-360
Rapid Enrichment of Phosphopeptides from Tryptic Digests of Proteins Using Iron Oxide Nanocomposites of Magnetic Particles Coated with Zirconia as the Concentrating Probes
Chun-Yuen Lo, Wei-Yu Chen, Cheng-Tai Chen, and Yu-Chie Chen
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 887-893
Phosphorylation of B14.5a Subunit from Bovine Heart Complex I Identified by Titanium Dioxide Selective Enrichment and Shotgun Proteomics
Gabriella Pocsfalvi, Manuela Cuccurullo, Gitta Schlosser, Salvatore Scacco, Sergio Papa, and Antonio Malorni
Mol Cell Proteomics (2007) 6(2): 231-237
Proteomic analysis of protein nitration in rat cerebellum: effect of biological aging
Gokulrangan G, Zaidi A, Michaelis ML, Schoneich C.
J Neurochem Early Edition: published 24-Jan-2007
Identification of HLA Class I-Associated Amino Acid Polymorphisms in the HIV-1C Proteome
Boutwell CL, Essex M.
AIDS Res Hum Retroviruses (2007) 23(1): 165-74
Formation of {epsilon}-Formyllysine on Silver-stained Proteins: Implications for Assignment of Isobaric Dimethylation Sites by Tandem Mass Spectrometry
Juan Antonio Oses-Prieto, Xin Zhang, and Alma L. Burlingame
Mol Cell Proteomics (2007) 6(2): 181-192
SPIDer: Saccharomyces protein-protein interaction database
Wu X, Zhu L, Guo J, Fu C, Zhou H, Dong D, Li Z, Zhang DY, Lin K.
BMC Bioinformatics (2006) 7(Suppl 5): S16
Predicting protein-protein interactions from protein domains using a set cover approach
Huang C, Morcos F, Kanaan SP, Wuchty S, Chen DZ, Izaguirre JA.
ACM Trans Comput Biol Bioinform (2007) 4(1): 78-87
Assessment of the Molecular Weight Distribution of Tannin Fractions through MALDI-TOF MS Analysis of Protein-Tannin Complexes
Mane C, Sommerer N, Yalcin T, Cheynier V, Cole RB, Fulcrand H.
Anal Chem Early Edition: published 13-Feb-2007
Identification of the Ligands of Protein Interaction Domains through a Functional Approach
Ginevra Caratu, Danilo Allegra, Marida Bimonte, Gabriele Giacomo Schiattarella, Chiara D'Ambrosio, Andrea Scaloni, Maria Napolitano, Tommaso Russo, and Nicola Zambrano
Mol Cell Proteomics (2007) 6(2): 333-345
Fly-DPI: database of protein interactomes for D. melanogaster in the approach of systems biology
Lin CY, Chen SH, Cho CS, Chen CL, Lin FK, Lin CH, Chen PY, Lo CZ, Hsiung CA.
BMC Bioinformatics (2006) 7(Suppl 5): S18
Proteomic characterization of HIV-1 Tat interactome
Gautier V, O'donohu N, Pennington S, Hall W.
Retrovirology (2006) 3(Suppl 1): S107
Characterization of IQGAP1-Containing Complexes in NK-Like Cells: Evidence for Rac 2 and RACK1 Association during Homotypic Adhesion
Xiaobo Meng, Oleg Krokhin, Keding Cheng, Werner Ens, and John A. Wilkins
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 744-750
Proteomic analysis of SET-binding proteins
Jorge Vera, Josep M. Estanyol, Nuria Canela, Franc Llorens, Neus Agell, Emilio Itarte, Oriol Bachs, Montserrat Jaumot
PROTEOMICS (2007) 7(4): 578-587
Technical, Experimental, and Biological Variations in Isobaric Tags for Relative and Absolute Quantitation (iTRAQ)
Chee Sian Gan, Poh Kuan Chong, Trong Khoa Pham, and Phillip C. Wright
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 821-827
iTRAQ Is a Useful Method To Screen for Membrane-Bound Proteins Differentially Expressed in Human Natural Killer Cell Types
Troy C. Lund, Lorraine B. Anderson, Valarie McCullar, LeeAnn Higgins, Gong H. Yun, Bartek Grzywacz, Michael R. Verneris, and Jeffrey S. Miller
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 644-653
Protein labeling by iTRAQ: A new tool for quantitative mass spectrometry in proteome research
Sebastian Wiese, Kai A. Reidegeld, Helmut E. Meyer, Bettina Warscheid
PROTEOMICS (2007) 7(3): 340-350
An iTRAQ-Based Quantitative Analysis To Elaborate the Proteomic Response of Nostoc sp. PCC 7120 under N2 Fixing Conditions
Karin Stensjö, Saw Yen Ow, Martin E. Barrios-Llerena, Peter Lindblad, and Phillip C. Wright
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 621-635
Amino acid-coded tagging approaches in quantitative proteomics
Xian Chen, Liwei Sun, Yanbao Yu, Yan Xue, Pengyuan Yang
Expert Review of Proteomics (2007) 4(1): 25-37
Minimizing Back Exchange in 18O/16O Quantitative Proteomics Experiments by Incorporation of Immobilized Trypsin into the Initial Digestion Step
Joel R. Sevinsky, Kristy J. Brown, Benjamin J. Cargile, Jonathan L. Bundy, and James L. Stephenson, Jr.
ANALYTICAL CHEMISTRY (2007) 79(5): 2158-2162
Infrared-based protein detection arrays for quantitative proteomics
Christian Loebke, Holger Sueltmann, Christian Schmidt, Frauke Henjes, Stefan Wiemann, Annemarie Poustka, Ulrike Korf
PROTEOMICS (2007) 7(4): 558-564
A Synthetic Protein Approach toward Accurate Mass Spectrometric Quantification of Component Stoichiometry of Multiprotein Complexes
Keiji Kito, Kazuhisa Ota, Tomoko Fujita, and Takashi Ito
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 792-800
Quantitative Proteomic and Microarray Analysis of the Archaeon Methanosarcina acetivorans Grown with Acetate versus Methanol
Lingyun Li, Qingbo Li, Lars Rohlin, UnMi Kim, Kirsty Salmon, Tomas Rejtar, Robert P. Gunsalus, Barry L. Karger, and James G. Ferry
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 759-771
Clinical proteomics--on the long way from bench to bedside?
Muller GA, Muller CA, Dihazi H.
Nephrol Dial Transplant Early Edition: published 13-Feb-2007
Understanding proteomics
Pierce JD, Fakhari M, Works KV, Pierce JT, Clancy RL.
Nurs Health Sci (2007) 9(1): 54-60
Trends in sample preparation for classical and second generation proteomics
Canas B, Pineiro C, Calvo E, Lopez-Ferrer D, Gallardo JM.
J Chromatogr A Early Edition: published 18-Jan-2007
Sherlock Holmes and the proteome - a detective story
Righetti PG, Boschetti E.
FEBS J Early Edition: published 15-Jan-2007
A concise review of serum markers for hepatocellular cancer
Wright LM, Kreikemeier JT, Fimmel CJ.
Cancer Detect Prev Early Edition: published 9-Feb-2007
Genetics, genomics, and proteomics: implications for the diagnosis and the treatment of chronic hepatitis C
Asselah T, Bieche I, Paradis V, Bedossa P, Vidaud M, Marcellin P.
Semin Liver Dis (2007) 27(1): 13-27
Achieving in-depth proteomics profiling by mass spectrometry
Ahn NG, Shabb JB, Old WM, Resing KA.
ACS Chem Biol (2007) 2(1): 39-52
The Alpher, Bethe and Gamow of IEF, the alpha-Centaury of electrokinetic methodologies. Part II: Immobilized pH gradients
Pier Giorgio Righetti
ELECTROPHORESIS (2007) 28(4): 545-555
Breast cancer proteomics: clinical perspectives
Lau TY, O'Connor DP, Brennan DJ, Duffy MJ, Pennington SR, Gallagher WM.
Expert Opin Biol Ther (2007) 7(2): 209-19
A Synthetic Protein Approach toward Accurate Mass Spectrometric Quantification of Component Stoichiometry of Multiprotein Complexes
Keiji Kito, Kazuhisa Ota, Tomoko Fujita, and Takashi Ito
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 792-800
Reproducible isolation of distinct, overlapping segments of the phosphoproteome
Bodenmiller B, Mueller LN, Mueller M, Domon B, Aebersold R.
Nat Methods Early Edition: published 11-Feb-2007
Comparison of SDS- and methanol-assisted protein solubilization and digestion methods for Escherichia coli membrane proteome analysis by 2-D LC-MS/MS
Nan Zhang, Rui Chen, Nelson Young, David Wishart, Philip Winter, Joel H. Weiner, Liang Li
PROTEOMICS (2007) 7(4): 484-493
Nonparametric mass calibration using hundreds of internal calibrants
Becker CH, Kumar P, Jones T, Lin H.
Anal Chem (2007) 79(4): 1702-7
Fe3+ immobilized metal affinity chromatography with silica monolithic capillary column for phosphoproteome analysis
Shun Feng, Chensong Pan, Xiaogang Jiang, Songyu Xu, Houjiang Zhou, Mingliang Ye, Hanfa Zou
PROTEOMICS (2007) 7(3): 351-360
Improvement of Recovery and Repeatability in Liquid Chromatography-Mass Spectrometry Analysis of Peptides
Paul M. van Midwoud, Laurent Rieux, Rainer Bischoff, Elisabeth Verpoorte, and Harm A. G. Niederländer
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 781-791
Dual-Source Mass Spectrometer with MALDI-LIT-ESI Configuration
Scott A. Smith, Thomas A. Blake, Demian R. Ifa, R. Graham Cooks, and Zheng Ouyang
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 837-845
Comparison of 2-D LC and 3-D LC with post- and pre-tryptic-digestion SEC fractionation for proteome analysis of normal human liver tissue
Jie Zhang, Xiuqing Xu, Mingxia Gao, Pengyuan Yang, Xiangmin Zhang
PROTEOMICS (2007) 7(4): 500-512
Matrix-Assisted Laser Desorption/Ionization-Mass Spectrometry of Hydrophobic Proteins in Mixtures Using Formic Acid, Perfluorooctanoic Acid, and Sorbitol
Rachel R. Ogorzalek Loo and Joseph A. Loo
ANALYTICAL CHEMISTRY (2007) 79(3): 1115-1125
A New Fast Method for nanoLC-MALDI-TOF/TOF-MS Analysis Using Monolithic Columns for Peptide Preconcentration and Separation in Proteomic Studies
Katrin Marcus, Heike Schäfer, Stefan Klaus, Christian Bunse, Remco Swart, and Helmut E. Meyer
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 636-643
Relative Information Content and Top-Down Proteomics by Mass Spectrometry: Utility of Ion/Ion Proton-Transfer Reactions in Electrospray-Based Approaches
Jian Liu, Paul A. Chrisman, David E. Erickson, and Scott A. McLuckey
ANALYTICAL CHEMISTRY (2007) 79(3): 1073-1081
A simple system for staining protein and nucleic acid electrophoresis gels
Dorian M. Raymer, Douglas E. Smith
ELECTROPHORESIS (2007) 28(5): 746-748
Automation of nanoflow liquid chromatography-tandem mass spectrometry for proteome analysis by using a strong cation exchange trap column
Xiaogang Jiang, Shun Feng, Ruijun Tian, Guanghui Han, Xinning Jiang, Mingliang Ye, Hanfa Zou
PROTEOMICS (2007) 7(4): 528-539
Application of electron transfer dissociation mass spectrometry in analyses of non-enzymatically glycated peptides
Zhang Q, Frolov A, Tang N, Hoffmann R, van de Goor T, Metz TO, Smith RD.
Rapid Commun Mass Spectrom (2007) 21(5): 661-666
Matrix-assisted laser desorption/ionization-mass spectrometry of hydrophobic proteins in mixtures using formic Acid, perfluorooctanoic Acid, and sorbitol
Loo RR, Loo JA.
Anal Chem (2007) 79(3): 1115-25
Bidimensional Tandem Mass Spectrometry for Selective Identification of Nitration Sites in Proteins
Angela Amoresano, Giovanni Chiappetta, Piero Pucci, Marco D'Ischia, and Gennaro Marino
ANALYTICAL CHEMISTRY (2007) 79(5): 2109-2117
Automating MALDI Sample Plate Loading
Tomas Andersson, Mattias Johansson, Gunnar Bolmsjö, and Peter James
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 894-896
A new approach for the analysis of mass spectrometry data for biomarker discovery
Barbarini N, Magni P, Bellazzi R.
AMIA Annu Symp Proc (2006) 1: 26-30.
De Novo Peptide Identification via Tandem Mass Spectrometry and Integer Linear Optimization
Peter A. DiMaggio, Jr. and Christodoulos A. Floudas
ANALYTICAL CHEMISTRY (2007) 79(4): 1433-1446
Nanochips for mining the serum and tumor proteome: novel nanochips for sensitive and reproducible identification of the low molecular weight proteome in serum isolated from mice bearing highly invasive human breast tumor xenografts
Robertson FM, Ming-Cheng Cheng M, Prosperi JR, Gaspari M, Terracciano R, Green-Church KB, Vandre DD, Cuda G, Ferrari M.
Nanomedicine (2006) 2(4): 295
Protein labeling by iTRAQ: A new tool for quantitative mass spectrometry in proteome research
Sebastian Wiese, Kai A. Reidegeld, Helmut E. Meyer, Bettina Warscheid
PROTEOMICS (2007) 7(3): 340-350
Production of membrane proteins using cell-free expression systems
Lavinia Liguori, Bruno Marques, Ana Villegas-Mendez, Romy Rothe, Jean-Luc Lenormand
Expert Review of Proteomics (2007) 4(1): 79-90
Quantitative Analysis of Surface-Immobilized Protein by TOF-SIMS: Effects of Protein Orientation and Trehalose Additive
Young-Pil Kim, Mi-Young Hong, Jinmo Kim, Eunkeu Oh, Hyun Kyong Shon, Dae Won Moon, Hak-Sung Kim, and Tae Geol Lee
ANALYTICAL CHEMISTRY (2007) 79(4): 1377-1385
Fractional Factorial Design for Optimization of the SELDI Protocol for Human Adipose Tissue Culture Media
Szalowska E, Hijum SA, Roelofsen H, Hoek A, Vonk RJ, Meerman GJ.
Biotechnol Prog (2007) 23(1): 217-224
Minimizing Back Exchange in 18O/16O Quantitative Proteomics Experiments by Incorporation of Immobilized Trypsin into the Initial Digestion Step
Joel R. Sevinsky, Kristy J. Brown, Benjamin J. Cargile, Jonathan L. Bundy, and James L. Stephenson, Jr.
ANALYTICAL CHEMISTRY (2007) 79(5): 2158-2162
Analysis and robot pipelined automation for SELDI-TOF mass spectrometry
Alterovitz G, Aivado M, Spentzos D, Libermann T, Ramoni M, Kohane I.
Conf Proc IEEE Eng Med Biol Soc (2004) 4: 3068-71
Chemical proteomics for drug discovery based on compound-immobilized affinity chromatography
Katayama H, Oda Y.
J Chromatogr B Analyt Technol Biomed Life Sci Early Edition: published 11-Jan-2007
Native Protein MS and Ion Mobility: Large Flying Proteins with ESI
Catherine S. KaddisJoseph A. Loo
ANALYTICAL CHEMISTRY (2007) 79(5): 1778-1784
Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry
Molina H, Horn DM, Tang N, Mathivanan S, Pandey A.
Proc Natl Acad Sci U S A Early Edition: published 7-Feb-2007
Rapid Enrichment of Phosphopeptides from Tryptic Digests of Proteins Using Iron Oxide Nanocomposites of Magnetic Particles Coated with Zirconia as the Concentrating Probes
Chun-Yuen Lo, Wei-Yu Chen, Cheng-Tai Chen, and Yu-Chie Chen
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 887-893
Evaluation of Endogenous Plasma Peptide Extraction Methods for Mass Spectrometric Biomarker Discovery
Lina P. Aristoteli, Mark P. Molloy, and Mark S. Baker
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 571-581
Improving de Novo Sequencing of Peptides Using a Charged Tag and C-Terminal Digestion
Weibin Chen, Peter J. Lee, Henry Shion, Nicholas Ellor, and John C. Gebler
ANALYTICAL CHEMISTRY (2007) 79(4): 1583-1590
MicroSPE-nanoLC-ESI-MS/MS Using 10-mum-i.d. Silica-Based Monolithic Columns for Proteomics
Luo Q, Page JS, Tang K, Smith RD.
Anal Chem (2007) 79(2): 540-5
Ultratrace LC/MS Proteomic Analysis Using 10-mum-i.d. Porous Layer Open Tubular Poly(styrene-divinylbenzene) Capillary Columns
Yue G, Luo Q, Zhang J, Wu SL, Karger BL.
Anal Chem (2007) 79(3): 938-46
Nonparametric Mass Calibration Using Hundreds of Internal Calibrants
Christopher H. Becker, Praveen Kumar, Ted Jones, and Hua Lin
ANALYTICAL CHEMISTRY (2007) 79(4): 1702-1707
A novel method of protein extraction from perennial Bupleurum root for 2-DE
Hui Xie, Shengli Pan, Shufen Liu, Kan Ye, Keke Huo
ELECTROPHORESIS (2007) 28(5): 871-875
Proteomic Complex Detection Using Sedimentation
Nicholas T. Hartman, Francesca Sicilia, Kathryn S. Lilley, and Paul Dupree
ANALYTICAL CHEMISTRY (2007) 79(5): 2078-2083
Atmospheric Pressure Molecular Imaging by Infrared MALDI Mass Spectrometry
Li Y, Shrestha B, Vertes A.
Anal Chem (2007) 79(2): 523-32
Membrane Proteome Analysis of Microdissected Ovarian Tumor Tissues Using Capillary Isoelectric Focusing/Reversed-Phase Liquid Chromatography-Tandem MS
Wang W, Guo T, Rudnick PA, Song T, Li J, Zhuang Z, Zheng W, Devoe DL, Lee CS, Balgley BM.
Anal Chem (2007) 79(3): 1002-1009
Trace Analysis of Proteins Using Postseparation Solution-Phase Digestion and Electrospray Mass Spectrometric Detection of Marker Peptides
B. Bruyneel, J. S. Hoos, M. T. Smoluch, H. Lingeman, W. M. A. Niessen, and H. Irth
ANALYTICAL CHEMISTRY (2007) 79(4): 1591-1598
Cleavage of Peptides and Proteins Using Light-Generated Radicals from Titanium Dioxide
Barbara J. Jones, Matthew J. Vergne, David M. Bunk, Laurie E. Locascio, and Mark A. Hayes
ANALYTICAL CHEMISTRY (2007) 79(4): 1327-1332
Selective Enrichment and Fractionation of Phosphopeptides from Peptide Mixtures by Isoelectric Focusing after Methyl Esterification
Chong-Feng Xu, Huaibin Wang, Daming Li, Xiang-Peng Kong, and Thomas A. Neubert
ANALYTICAL CHEMISTRY (2007) 79(5): 2007-2014
Chromosomal His-tagging: An alternative approach to membrane protein purification
Laurent Mamelli, Luc Dedieu, Emmanuelle Dé, Michael E. Konkel, Jean-Marie Pagès, Jean-Michel Bolla
PROTEOMICS (2007) 7(3): 399-402
Improved comparative proteome analysis based on two-dimensional gel electrophoresis
Murat Eravci, Sandra Fuxius, Oliver Broedel, Stephanie Weist, Selda Eravci, Ulrich Mansmann, Hartmut Schluter, Joachim Tiemann, Andreas Baumgartner
PROTEOMICS (2007) 7(4): 513-523
Technical, Experimental, and Biological Variations in Isobaric Tags for Relative and Absolute Quantitation (iTRAQ)
Chee Sian Gan, Poh Kuan Chong, Trong Khoa Pham, and Phillip C. Wright
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 821-827
NTA-mediated protein capturing strategy in screening experiments for small organic molecules by surface plasmon resonance
Naoei Yoshitani, Kazuki Saito, Wakana Saikawa, Miwako Asanuma, Shigeyuki Yokoyama, Hiroshi Hirota
PROTEOMICS (2007) 7(4): 494-499
Coupling of Protein HPLC to MALDI-TOF MS Using an On-Target Device for Fraction Collection, Concentration, Digestion, Desalting, and Matrix/Analyte Cocrystallization
Perlman DH, Huang H, Dauly C, Costello CE, McComb ME.
Anal Chem Early Edition: published 26-Jan-2007
Ruthenium (II) tris-bathophenanthroline disulfonate is well suitable for Tris-Glycine PAGE but not for Bis-Tris gels
Jan Moebius, Katrin Denker, Albert Sickmann
PROTEOMICS (2007) 7(4): 524-527
Combination of Abundant Protein Depletion and Multi-Lectin Affinity Chromatography (M-LAC) for Plasma Protein Biomarker Discovery
Tatiana Plavina, Eric Wakshull, William S. Hancock, and Marina Hincapie
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 662-671
Proteomic Profiling of Intact Proteins Using WAX-RPLC 2-D Separations and FTICR Mass Spectrometry
Seema Sharma, David C. Simpson, Nikola Toli , Navdeep Jaitly, Anoop M. Mayampurath, Richard D. Smith, and Ljiljana Pa a-Toli
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 602-610
Identification of N-Linked Glycosylation Sites Using Glycoprotein Digestion with Pronase Prior to MALDI Tandem Time-of-Flight Mass Spectrometry
Ying Qing Yu, Jennifer Fournier, Martin Gilar, and John C. Gebler
ANALYTICAL CHEMISTRY (2007) 79(4): 1731-1738
Assignment of human plasma polypeptides on a nondenaturing 2-D gel using MALDI-MS and PMF and comparisons with the results of intact protein mapping
Takashi Manabe, Ya Jin, Osamu Tani
ELECTROPHORESIS (2007) 28(5): 843-863
Relative information content and top-down proteomics by mass spectrometry: utility of ion/ion proton-transfer reactions in electrospray-based approaches
Liu J, Chrisman PA, Erickson DE, McLuckey SA.
Anal Chem (2007) 79(3): 1073-81
Evaluation of two proteomics technologies used to screen the membrane proteomes of wild-type Corynebacterium glutamicum and an L: -lysine-producing strain
Schluesener D, Rogner M, Poetsch A.
Anal Bioanal Chem Early Edition: published 13-Jan-2007
Sonoreactor-Based Technology for Fast High-Throughput Proteolytic Digestion of Proteins
R. Rial-Otero, R. J. Carreira, F. M. Cordeiro, A. J. Moro, L. Fernandes, I. Moura, and J. L. Capelo
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 909-912
Head-to-Head Comparison of Serum Fractionation Techniques
Jeffrey R. Whiteaker, Heidi Zhang, Jimmy K. Eng, Ruihua Fang, Brian D. Piening, Li-Chia Feng, Travis D. Lorentzen, Regine M. Schoenherr, John F. Keane, Ted Holzman, Matthew Fitzgibbon, ChenWei Lin, Hui Zhang, Kelly Cooke, Tao Liu, David G. Camp II, Leigh Anderson, Julian Watts, Richard D. Smith, Martin W. McIntosh, and Amanda G. Paulovich
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 828-836
Rapid protein identification using a disposable on-line clean-up/concentrating device and electrospray ionization mass spectrometry
Chu-Yun Tsai, Pei-Jing Pai, Yi-Hsin Ho, Jyh-Feng Lu, Jinn-Shyan Wang, Wann-Yin Lin, Guor-Rong Her
Rapid Communications in Mass Spectrometry (2007) 21(4): 459-465
From Genome to Proteome: Back to the Future Report on the 7th Siena meeting, September 3-7, 2006
Kyla Pennington, Kasper J. Pedersen, Ciara A. McManus
PROTEOMICS (2007) 7(3): 332-336
Entering the Implementation Era A report on the HUPO-PSI Fall workshop 25-27 September 2006, Washington DC, USA
Sandra Orchard, Chris F. Taylor, Phil Jones, Luisa Montechi-Palazzo, Pierre-Alain Binz, Andrew R. Jones, Angel Pizarro, Randall K. Julian Jr., Henning Hermjakob
PROTEOMICS (2007) 7(3): 337-339
Currents: An LC column for ultratrace detection of peptides | Kinetic proteome study of yeast | Proteins that bind PrPC | Ion/ion reactions for top-down proteomics | Candidate biomarkers for the diagnosis of kidney cancer
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 435-437
News in Brief
Expert Review of Proteomics (2007) 4(1): 5-7
TOOLbox: SpectConnect for metabolomics | ProteomeCommons.org IO Framework | tYNA for comparative interactomics | IntNetDB for protein-protein interactions
JOURNAL OF PROTEOME RESEARCH (2007) 6(2): 436-437