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SPS' DigestIssue 47, 14-Dec-2007 |
RAId DbS: Peptide Identification using Database Searches with Realistic Statistics
Alves G, Ogurtsov AY, Yu YK.
Biol Direct (2007) 2(1): 25
ATDB: a uni-database platform for animal toxins
He QY, He QZ, Deng XC, Yao L, Meng E, Liu ZH, Liang SP.
Nucleic Acids Res Early Edition: published 11-Oct-2007
Integration of biological networks and gene expression data using Cytoscape
Cline MS, Smoot M, Cerami E, Kuchinsky A, Landys N, Workman C, Christmas R, Avila-Campilo I, Creech M, Gross B, Hanspers K, Isserlin R, Kelley R, Killcoyne S, Lotia S, Maere S, Morris J, Ono K, Pavlovic V, Pico AR, Vailaya A, Wang PL, Adler A, Conklin BR, Hood L, Kuiper M, Sander C, Schmulevich I, Schwikowski B, Warner GJ, Ideker T, Bader GD.
Nat Protoc (2007) 2(10): 2366-82
ChromDB: The Chromatin Database
Gendler K, Paulsen T, Napoli C.
Nucleic Acids Res Early Edition: published 16-Oct-2007
A new strategy to filter out false positive identifications of peptides in SEQUEST database search results
Jiyang Zhang, Jianqi Li, Hongwei Xie, Yunping Zhu, Fuchu He
PROTEOMICS (2007) 7(22): 4036-4044
PepSplice: cache-efficient search algorithms for comprehensive identification of tandem mass spectra
Franz F. Roos, Riko Jacob, Jonas Grossmann, Bernd Fischer, Joachim M. Buhmann, Wilhelm Gruissem, Sacha Baginsky, and Peter Widmayer
Bioinformatics (2007) 23(22): 3016-3023
Bacteriome.org an integrated protein interaction database for E. coli
Su C, Peregrin-Alvarez JM, Butland G, Phanse S, Fong V, Emili A, Parkinson J.
Nucleic Acids Res Early Edition: published 16-Oct-2007
Broadening the Horizon - Level 2.5 of the HUPO-PSI Format for Molecular Interactions
Kerrien S, Orchard S, Montecchi-Palazzi L, Aranda B, Quinn AF, Vinod N, Bader GD, Xenarios I, Wojcik J, Sherman D, Tyers M, Salama JJ, Moore S, Ceol A, Chatr-Aryamontri A, Oesterheld M, Stumpflen V, Salwinski L, Nerothin J, Cerami E, Cusick ME, Vidal M, Gilson M, Armstrong J, Woollard P, Hogue C, Eisenberg D, Cesareni G, Apweiler R, Hermjakob H.
BMC Biol (2007) 5(1): 44
PhosPhAt: a database of phosphorylation sites in Arabidopsis thaliana and a plant-specific phosphorylation site predictor
Heazlewood JL, Durek P, Hummel J, Selbig J, Weckwerth W, Walther D, Schulze WX.
Nucleic Acids Res Early Edition: published 4-Nov-2007
A comparative view at comprehensive information resources on three-dimensional structures of biological macro-molecules
Huhne R, Koch FT, Suhnel J.
Brief Funct Genomic Proteomic (2007) 6(3): 220-39
Semi-supervised learning for peptide identification from shotgun proteomics datasets
Kall L, Canterbury JD, Weston J, Noble WS, Maccoss MJ.
Nat Methods (2007) 4(11): 923-5
On the detection of functionally coherent groups of protein domains with an extension to protein annotation
McLaughlin WA, Chen K, Hou T, Wang W.
BMC Bioinformatics (2007) 8(1): 390
Calibrating E-values for MS2 database search methods
Alves G, Ogurtsov AY, Wu WW, Wang G, Shen RF, Yu YK.
Biol Direct (2007) 2(1): 26
Informatics development: Challenges and solutions for MALDI mass spectrometry
Fenyo D, Beavis RC.
Mass Spectrom Rev (2008) 27(1): 1-19
The plant organelles database (PODB): a collection of visualized plant organelles and protocols for plant organelle research
Mano S, Miwa T, Nishikawa SI, Mimura T, Nishimura M.
Nucleic Acids Res Early Edition: published 11-Oct-2007
HMMatch: Peptide Identification by Spectral Matching of Tandem Mass Spectra Using Hidden Markov Models
Wu X, Tseng CW, Edwards N.
J Comput Biol (2007) 14(8): 1025-43
Algorithm for Peptide sequencing by tandem mass spectrometry based on better preprocessing and anti-symmetric computational model
Ning K, Leong HW.
Comput Syst Bioinformatics Conf (2007) 6: 19-30
Cancer molecular pattern discovery by subspace consensus kernel classification
Han X.
Comput Syst Bioinformatics Conf (2007) 6: 55-65
A workflow to increase the detection rate of proteins from unsequenced organisms in high-throughput proteomics experiments
Jonas Grossmann, Bernd Fischer, Katja Baerenfaller, Judith Owiti, Joachim M. Buhmann, Wilhelm Gruissem, Sacha Baginsky
PROTEOMICS (2007) 7(23): 4245-4254
Design and Implementation of Probability-Based Scoring Function for Peptide Mass Fingerprinting Protein Identification
Song Z, Chen L, Zhang C, Xu D.
Conf Proc IEEE Eng Med Biol Soc (2006) 1: 4556-4559
Systematic characterization of high mass accuracy influence on false discovery and probability scoring in peptide mass fingerprinting
Dodds ED, Clowers BH, Hagerman PJ, Lebrilla CB.
Anal Biochem (2008) 372(2): 156-66
PhosphoPep-a phosphoproteome resource for systems biology research in Drosophila Kc167 cells
Bodenmiller B, Malmstrom J, Gerrits B, Campbell D, Lam H, Schmidt A, Rinner O, Mueller LN, Shannon PT, Pedrioli PG, Panse C, Lee HK, Schlapbach R, Aebersold R.
Mol Syst Biol (2007) 3: 139
Advancement in protein inference from shotgun proteomics using peptide detectability
Alves P, Arnold RJ, Novotny MV, Radivojac P, Reilly JP, Tang H.
Pac Symp Biocomput (2007) 12: 409-20
CEBS Chemical Effects in Biological Systems: a public data repository integrating study design and toxicity data with microarray and proteomics data
Waters M, Stasiewicz S, Merrick BA, Tomer K, Bushel P, Paules R, Stegman N, Nehls G, Yost KJ, Johnson CH, Gustafson SF, Xirasagar S, Xiao N, Huang CC, Boyer P, Chan DD, Pan Q, Gong H, Taylor J, Choi D, Rashid A, Ahmed A, Howle R, Selkirk J, Tennant R, Fostel J.
Nucleic Acids Res Early Edition: published 25-Oct-2007
Leveraging the structure of the Semantic Web to enhance information retrieval for proteomics
Andrew Smith, Kei Cheung, Michael Krauthammer, Martin Schultz, and Mark Gerstein
Bioinformatics (2007) 23(22): 3073-3079
Specificity Fingerprinting of Retaining beta-1,4-Glycanases in the Cellulomonas fimi Secretome Using Two Fluorescent Mechanism-Based Probes
Hekmat O, Florizone C, Kim YW, Eltis LD, Warren RA, Withers SG.
Chembiochem (2007) 8(17): 2125-2132
Analysis of Time-Related Metabolic Fluctuations Induced by Ethionine in the Rat
Eleni Skordi, Ivan K. S. Yap, Sandrine P. Claus, François-Pierre J. Martin, Olivier Cloarec, Johan Lindberg, Ina Schuppe-Koistinen, Elaine Holmes, and Jeremy K. Nicholson
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4572-4581
Gel-based proteomics reveals potential novel protein markers of ozone stress in leaves of cultivated bean and maize species of Panama
Nilka Lineth Torres, Kyoungwon Cho, Junko Shibato, Misato Hirano, Akihiro Kubo, Yoshinori Masuo, Hitoshi Iwahashi, Nam-Soo Jwa, Ganesh Kumar Agrawal, Randeep Rakwal
ELECTROPHORESIS (2007) 28(23): 4369-4381
Calorimetry outside the box: a new window into the plasma proteome
Garbett NC, Miller JJ, Jenson AB, Chaires JB.
Biophys J Early Edition: published 19-Oct-2007
Proteomic Analysis of Pycnogenol Effects in RAW 264.7 Macrophage Reveals Induction of Cathepsin D Expression and Enhancement of Phagocytosis
Wu TF, Hsu CY, Huang HS, Chou SP, Wu H.
J Agric Food Chem (2007) 55(24): 9784-9791
Nerve Growth Factor Receptor TrkA Signaling in Breast Cancer Cells Involves Ku70 to Prevent Apoptosis
Emmanuelle Com, Chann Lagadec, Adeline Page, Ikram El Yazidi-Belkoura,Christian Slomianny, Ambre Spencer, Djilali Hammache, Brian B. Rudkin, and Hubert Hondermarck
Mol Cell Proteomics (2007) 6(11): 1842-1854
Proteomic analysis of reactive oxygen species (ROS)-related proteins in rice roots
Kim SG, Kim ST, Kang SY, Wang Y, Kim W, Kang KY.
Plant Cell Rep Early Edition: published 12-Oct-2007
Comparative genomics of transcription factors and chromatin proteins in parasitic protists and other eukaryotes
Iyer LM, Anantharaman V, Wolf MY, Aravind L.
Int J Parasitol Early Edition: published 15-Sep-2007
Proteomics Reveals N-Linked Glycoprotein Diversity in Caenorhabditis elegans and Suggests an Atypical Translocation Mechanism for Integral Membrane Proteins
Hiroyuki Kaji, Jun-ichi Kamiie, Hirotaka Kawakami, Kazuki Kido, YoshioYamauchi, Takashi Shinkawa, Masato Taoka, Nobuhiro Takahashi, and Toshiaki Isobe
Mol Cell Proteomics (2007) 6(12): 2100-2109
Interrogating Yeast Surface-displayed Human Proteome to Identify Small Molecule-binding Proteins
Scott Bidlingmaier and Bin Liu
Mol Cell Proteomics (2007) 6(11): 2012-2020
Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes
de Groot MJ, Daran-Lapujade P, van Breukelen B, Knijnenburg TA, de Hulster EA, Reinders MJ, Pronk JT, Heck AJ, Slijper M.
Microbiology (2007) 153(Pt 11): 3864-3878
Cell Wall Proteome in the Maize Primary Root Elongation Zone. II. Region-Specific Changes in Water Soluble and Lightly Ionically-Bound Proteins under Water Deficit
Zhu J, Alvarez S, Marsh E, Lenoble ME, Cho IJ, Sivaguru M, Chen S, Nguyen HT, Wu Y, Schachtman DP, Sharp RE.
Plant Physiol (2007) 145(4): 1533-48
Proteomic analysis of human plasma proteins by two-dimensional gel electrophoresis and by antibody arrays following depletion of high-abundance proteins
Desrosiers RR, Beaulieu E, Buchanan M, Beliveau R.
Cell Biochem Biophys (2007) 49(3): 182-95
The effect of environmental salinity on the proteome of the sea bass (Dicentrarchus labrax L.)
Ky CL, de Lorgeril J, Hirtz C, Sommerer N, Rossignol M, Bonhomme F.
Anim Genet (2007) 38(6): 601-8
Proteomic Response of Rice Seedling Leaves to Elevated CO2 Levels
Saleem A. Bokhari, Xiang-Yuan Wan, Yi-Wei Yang, Lu Zhou, Wan-Li Tang, and Jin-Yuan Liu
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4624-4633
A High Content in Lipid-modified Peripheral Proteins and Integral Receptor Kinases Features in the Arabidopsis Plasma Membrane Proteome
Anne Marmagne, Myriam Ferro, Thierry Meinnel, Christophe Bruley, Lauriane Kuhn, Jerome Garin, Helene Barbier-Brygoo, and Genevieve Ephritikhine
Mol Cell Proteomics (2007) 6(11): 1980-1996
Exploring the Mitochondrial Proteome of the Ciliate Protozoon Tetrahymena thermophila: Direct Analysis by Tandem Mass Spectrometry
Smith DG, Gawryluk RM, Spencer DF, Pearlman RE, Siu KW, Gray MW.
J Mol Biol (2007) 374(3): 837-63
A Comparative Analysis of Perturbations Caused by a Gene Knock-out, a Dominant Negative Allele, and a Set of Peptide Aptamers
Nadia Abed, Marc Bickle, Bernard Mari, Matthieu Schapira, Raquel Sanjuan-Espana, Karine Robbe Sermesant, Olivier Moncorge, Sandrine Mouradian-Garcia, Pascal Barbry, Brian B. Rudkin, Marie-Odile Fauvarque, Isabelle Michaud-Soret, and Pierre Colas
Mol Cell Proteomics (2007) 6(12): 2110-2121
Homeodomain-Interacting Protein Kinase-2 (HIPK2) Phosphorylates HMGA1a at Ser-35, Thr-52, and Thr-77 and Modulates Its DNA Binding Affinity
Qingchun Zhang and Yinsheng Wang
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4711-4719
Hippocampal signaling cascades are modulated in voluntary and treadmill exercise rats
Wei-Qiang Chen, Andrus Viidik, Monika Skalicky, Harald Höger, Gert Lubec
ELECTROPHORESIS (2007) 28(23): 4392-4400
Coupling genetics and proteomics to identify aphid proteins associated with vector-specific transmission of Polerovirus (Luteoviridae)
Yang X, Thannhauser TW, Burrows M, Cox-Foster D, Gildow FE, Gray SM.
J Virol (2008) 82(1): 291-9
Proteome Analysis of Arabidopsis Leaf Peroxisomes Reveals Novel Targeting Peptides, Metabolic Pathways, and Defense Mechanisms
Reumann S, Babujee L, Ma C, Wienkoop S, Siemsen T, Antonicelli GE, Rasche N, Luder F, Weckwerth W, Jahn O.
Plant Cell (2007) 19(10): 3170-93
Proteomic analysis identified N-cadherin, clusterin, and HSP27 as mediators of SPARC (secreted protein, acidic and rich in cysteines) activity in melanoma cells
María Soledad Sosa, María Romina Girotti, Edgardo Salvatierra, Federico Prada, Juan Antonio López de Olmo, Silvia Juárez Gallango, Juan Pablo Albar, Osvaldo Luis Podhajcer, Andrea Sabina Llera
PROTEOMICS (2007) 7(22): 4123-4134
Induction of growth arrest and polycomb gene expression by reversine allows C2C12 cells to be reprogrammed to various differentiated cell types
Sze Wan Shan, Mei Kuen Tang, Pak Ham Chow, Miguel Maroto, Dong Qing Cai, Kenneth K. H. Lee
PROTEOMICS (2007) 7(23): 4303-4316
Proteomic analysis of the effects and interactions of sleep deprivation and aging in mouse cerebral cortex
Pawlyk AC, Ferber M, Shah A, Pack AI, Naidoo N.
J Neurochem (2007) 103(6): 2301-13
Modulation of the host cell proteome by the intracellular apicomplexan parasite Toxoplasma gondii
Nelson MM, Jones AR, Carmen JC, Sinai AP, Burchmore R, Wastling JM.
Infect Immun Early Edition: published 29-Oct-2007
Genetic basis of proteome variation in yeast
Foss EJ, Radulovic D, Shaffer SA, Ruderfer DM, Bedalov A, Goodlett DR, Kruglyak L.
Nat Genet (2007) 39(11): 1369-75
Proteomic Analysis of Host Responses in HepG2 Cells during Dengue Virus Infection
Sa-nga Pattanakitsakul, Kamonthip Rungrojcharoenkit, Rattiyaporn Kanlaya, Supachok Sinchaikul, Sansanee Noisakran, Shui-Tein Chen, Prida Malasit, and Visith Thongboonkerd
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4592-4600
Trypanosoma brucei brucei induces alteration in the head proteome of the tsetse fly vector Glossina palpalis gambiensis
Lefevre T, Thomas F, Ravel S, Patrel D, Renault L, Le Bourligu L, Cuny G, Biron DG.
Insect Mol Biol Early Edition: published 19-Oct-2007
Metabolic Adaptation of Lactococcus lactis in the Digestive Tract: The Example of Response to Lactose
Roy K, Anba J, Corthier G, Rigottier-Gois L, Monnet V, Mistou MY.
J Mol Microbiol Biotechnol (2008) 14(1-3): 137-44
Proteomics Analysis of Cytokine-induced Dysfunction and Death in Insulin-producing INS-1E Cells: New Insights into the Pathways Involved
Wannes D'Hertog, Lut Overbergh, Kasper Lage, Gabriela Bonfim Ferreira,Michael Maris, Conny Gysemans, Daisy Flamez, Alessandra Kupper Cardozo, Gert Van den Bergh, Liliane Schoofs, Lut Arckens, Yves Moreau, Daniel Aaen Hansen, Decio Laks Eizirik, Ettienne Waelkens, and Chantal Mathieu
Mol Cell Proteomics (2007) 6(12): 2180-2199
Proteomic analysis of tomato (Solanum lycopersicum, formerly hycopersicon esculentum) pollen
Sheoran IS, Ross AR, Olson DJ, Sawhney VK.
J Exp Bot (2007) 58(13): 3525-35
The Saccharomyces Homolog of Mammalian RACK1, Cpc2/Asc1p, Is Required for FLO11-dependent Adhesive Growth and Dimorphism
Oliver Valerius, Malte Kleinschmidt, Nicole Rachfall, Florian Schulze,Sarai Lopez Marin, Michael Hoppert, Katrin Streckfuss-Bomeke, Claudia Fischer, and Gerhard H. Braus
Mol Cell Proteomics (2007) 6(11): 1968-1979
Proteomic identification of tmRNA substrates
Hong SJ, Lessner FH, Mahen EM, Keiler KC.
Proc Natl Acad Sci U S A (2007) 104(43): 17128-33
Identification of Human Cytomegalovirus UL84 viral and cellular encoded binding partners using Proteomics Analysis
Gao Y, Colletti K, Pari GS.
J Virol (2008) 82(1): 96-104
Proteomics reveals multiple routes to the osteogenic phenotype in mesenchymal stem cells
Bennett KP, Bergeron C, Acar E, Klees RF, Vandenberg SL, Yener B, Plopper GE.
BMC Genomics (2007) 8(1): 380
Proteomic analysis of rice defense response induced by probenazole
Lin YZ, Chen HY, Kao R, Chang SP, Chang SJ, Lai EM.
Phytochemistry Early Edition: published 18-Oct-2007
Mammalian Proteasome Subpopulations with Distinct Molecular Compositions and Proteolytic Activities
Oliver Drews, Robert Wildgruber, Chenggong Zong, Ute Sukop, Mikkel Nissum, Gerhard Weber, Aldrin V. Gomes, and Peipei Ping
Mol Cell Proteomics (2007) 6(11): 2021-2031
Two-dimensional electrophoresis with cationic detergents: A powerful tool for the proteomic analysis of myelin proteins. Part 2: Analytical aspects
Yamaguchi Y, Miyagi Y, Baba H.
J Neurosci Res Early Edition: published 25-Oct-2007
Proteomic analysis of p16ink4a-binding proteins
Elielson Souza-Rodrígues, Josep M. Estanyol, Erica Friedrich-Heineken, Eva Olmedo, Jorge Vera, Nuria Canela, Sonia Brun, Neus Agell, Ulrich Hübscher, Oriol Bachs, Montserrat Jaumot
PROTEOMICS (2007) 7(22): 4102-4111
Transcriptional Profiling of Native Inner Medullary Collecting Duct Cells from Rat Kidney
Uawithya P, Pisitkun T, Ruttenberg BE, Knepper MA.
Physiol Genomics Early Edition: published 23-Oct-2007
2-DE and MS analysis of interactions between Lactobacillus fermentum I5007 and intestinal epithelial cells
Fang Yang, Junjun Wang, Xiaojie Li, Tianyi Ying, Shiyan Qiao, Defa Li, Guoyao Wu
ELECTROPHORESIS (2007) 28(23): 4330-4339
The protein profile of mouse mature cumulus-oocyte complex
Meng Y, Liu XH, Ma X, Shen Y, Fan L, Leng J, Liu JY, Sha JH.
Biochim Biophys Acta (2007) 1774(11): 1477-90
Liver proteome analysis of adaptive response in rat immediately after partial hepatectomy
Yanwei Sun, Xinyu Deng, Wenrui Li, Yujuan Yan, Handong Wei, Ying Jiang, Fuchu He
PROTEOMICS (2007) 7(23): 4398-4407
Gelsolin is Depleted in Post-Shock Mesenteric Lymph
Jordan JR, Moore EE, Damle SS, Eckels P, Johnson JL, Roach JP, Redzic JS, Hansen KC, Banerjee A.
J Surg Res (2007) 143(1): 130-5
Proteomic Analysis of Royal Jelly from Three Strains of Western Honeybees (Apis mellifera)
Li J, Wang T, Zhang Z, Pan Y.
J Agric Food Chem (2007) 55(21): 8411-8422
Endogenous Phosphotyrosine Signaling in Zebrafish Embryos
Simone Lemeer, Rob Ruijtenbeek, Martijn W. H. Pinkse, Chris Jopling, Albert J. R. Heck, Jeroen den Hertog, and Monique Slijper
Mol Cell Proteomics (2007) 6(12): 2088-2099
Comparative Proteomics Analysis of Differentially Expressed Proteins in Chickpea Extracellular Matrix during Dehydration Stress
Deepti Bhushan, Aarti Pandey, Mani Kant Choudhary, Asis Datta, Subhra Chakraborty, and Niranjan Chakraborty
Mol Cell Proteomics (2007) 6(11): 1868-1884
Proteomic, pigment composition, and organization of thylakoid membranes in iron-deficient spinach leaves
Timperio AM, D'Amici GM, Barta C, Loreto F, Zolla L.
J Exp Bot (2007) 58(13): 3695-3710
Differential distribution of proteins and lipids in detergent-resistant and detergent-soluble domains in rod outer segment plasma membranes and disks
Elliott MH, Nash ZA, Takemori N, Fliesler SJ, McClellan ME, Naash MI.
J Neurochem Early Edition: published 18-Oct-2007
Proteomic Analysis of Microvesicles Derived from Human Colorectal Cancer Cells
Dong-Sic Choi, Jae-Min Lee, Gun Wook Park, Hyeon-Woo Lim, Joo Young Bang, Yoon-Keun Kim, Kyung-Hoon Kwon, Ho Jeong Kwon, Kwang Pyo Kim, and Yong Song Gho
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4646-4655
A Newly Identified 191A/C Mutation in the Rv2629 Gene that Was Significantly Associated with Rifampin Resistance in Mycobacterium tuberculosis
Qingzhong Wang, Jun Yue, Lu Zhang, Ying Xu, Jiazhen Chen, Min Zhang, Bingdong Zhu, Hongyan Wang, and Honghai Wang
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4564-4571
Proteome analysis of metastatic colorectal cancer cells recognized by the lectin Helix pomatia agglutinin (HPA)
Julien Saint-Guirons, Elton Zeqiraj, Udo Schumacher, Pamela Greenwell, Miriam Dwek
PROTEOMICS (2007) 7(22): 4082-4089
Monoclonal antibody proteomics: Discovery and prevalidation of chronic obstructive pulmonary disease biomarkers in a single step
Eszter Csanky, Petra Olivova, Eva Rajnavolgyi, William Hempel, Nadege Tardieu, Elesne Toth Katalin, Anne Jullien, Carole Malderez-Bloes, Mariana Kuras, Manuel X. Duval, Laszlo Nagy, Beata Scholtz, William Hancock, Barry Karger, András Guttman, Laszlo Takacs
ELECTROPHORESIS (2007) 28(23): 4401-4406
Proteome analysis of human gastric cardia adenocarcinoma by laser capture microdissection
Cheng Y, Zhang J, Li Y, Wang Y, Gong J.
BMC Cancer (2007) 7(1): 191
Optimizing separation efficiency of 2-DE procedures for visualization of different superoxide dismutase forms in a cellular model of amyotrophic lateral sclerosis
Cristina Di Poto, Paolo Iadarola, Roberta Salvini, Ileana Passadore, Cristina Cereda, Mauro Ceroni, Anna Maria Bardoni
ELECTROPHORESIS (2007) 28(23): 4340-4347
Proteomic patterns for classification of ovarian cancer and CTCL serum samples utilizing peak pairs indicative of post-translational modifications
Chenwei Liu, Nancy Shea, Sally Rucker, Linda Harvey, Paul Russo, Richard Saul, Mary F. Lopez, Alvydas Mikulskis, Scott Kuzdzal, Eva Golenko, David Fishman, Eric Vonderheid, Susan Booher, Edward W. Cowen, Sam T. Hwang, Gordon R. Whiteley
PROTEOMICS (2007) 7(22): 4045-4052
Study of protein targets for covalent modification by the antitumoral and anti-inflammatory prostaglandin PGA(1): focus on vimentin
Gharbi S, Garzon B, Gayarre J, Timms J, Perez-Sala D.
J Mass Spectrom (2007) 42(11): 1474-1484
Pharmacogenomics and pharmacoproteomics in the evaluation and management of short stature
Rosenfeld RG.
Eur J Endocrinol (2007) 157(Suppl 1): S27-31
2-DE and MALDI-TOF-MS for a comparative analysis of proteins expressed in different cellular models of amyotrophic lateral sclerosis
Cristina Di Poto, Paolo Iadarola, Anna Maria Bardoni, Ileana Passadore, Sofia Giorgetti, Cristina Cereda, Maria Teresa Carrě, Mauro Ceroni, Roberta Salvini
ELECTROPHORESIS (2007) 28(23): 4320-4329
Salivary biomarkers associated with perceived satiety and body mass in humans
Lucien F. Harthoorn, Raymond G. Schipper, Arnoud Loof, Pieter F. G. Vereijken, Waander L. Van Heerde, Eric Dransfield
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1637-1650
Salivary proteomic and genomic biomarkers for primary Sjogren's syndrome
Hu S, Wang J, Meijer J, Ieong S, Xie Y, Yu T, Zhou H, Henry S, Vissink A, Pijpe J, Kallenberg C, Elashoff D, Loo JA, Wong DT.
Arthritis Rheum (2007) 56(11): 3588-3600
Cancer biomarker discovery via low molecular weight serum proteome profiling - Where is the tumor?
Michael T. Davis, Paul Auger, Chris Spahr, Scott D. Patterson
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1545-1558
Identification of putative serum glycoprotein biomarkers for human lung adenocarcinoma by multilectin affinity chromatography and LC-MS/MS
Sun-Hee Heo, Seung-Jin Lee, Hyun-Mo Ryoo, Jae-Yong Park, Je-Yoel Cho
PROTEOMICS (2007) 7(23): 4292-4302
Profiling of vitreous proteomes from proliferative diabetic retinopathy and nondiabetic patients
Taeoh Kim, Sang Jin Kim, Kyunggon Kim, Un-Beom Kang, Cheolju Lee, Kyong Soo Park, Hyeong Gon Yu, Youngsoo Kim
PROTEOMICS (2007) 7(22): 4203-4215
Oral cancer proteomics
Hu S, Wong DT.
Curr Opin Mol Ther (2007) 9(5): 467-76
Proteomics of Transformed Lymphocytes from a Family with Familial Pulmonary Arterial Hypertension
Meyrick BO, Friedman DB, Billheimer DD, Cogan JD, Prince MA, Phillips JA, Loyd JE.
Am J Respir Crit Care Med Early Edition: published 11-Oct-2007
Chronic hypoxia aggravates renal injury via suppression of Cu/Zn-SOD - a proteomic analysis
Son D, Kojima I, Inagi R, Matsumoto M, Fujita T, Nangaku M.
Am J Physiol Renal Physiol Early Edition: published 24-Oct-2007
Cancer Biomarker Discovery in Plasma Using a Tissue-targeted Proteomic Approach
Zhang H, Chan DW.
Cancer Epidemiol Biomarkers Prev (2007) 16(10): 1915-7
The caspase-1 digestome identifies the glycolysis pathway as a target during infection and septic shock
Shao W, Yeretssian G, Doiron K, Hussain SN, Saleh M.
J Biol Chem (2007) 282(50): 36321-9
Identification of alpha-actinin 4 and 67 kDa laminin receptor as stage-specific markers in esophageal cancer via proteomic approaches
Fu L, Qin YR, Xie D, Chow HY, Ngai SM, Kwong DL, Li Y, Guan XY.
Cancer (2007) 110(12): 2672-81
Proteomic biomarkers of peripheral blood mononuclear cells obtained from postmenopausal women undergoing an intervention with soy isoflavones
Fuchs D, Vafeiadou K, Hall WL, Daniel H, Williams CM, Schroot JH, Wenzel U.
Am J Clin Nutr (2007) 86(5): 1369-75
A proteomic kinetic analysis of IGROV1 ovarian carcinoma cell line response to cisplatin treatment
Karen Le Moguen, Hubert Lincet, Paulo Marcelo, Edwige Lemoisson, Natacha Heutte, Marilyne Duval, Laurent Poulain, Joëlle Vinh, Pascal Gauduchon, Bruno Baudin
PROTEOMICS (2007) 7(22): 4090-4101
Proteomics of Caenorhabditis elegans over-expressing human alpha-synuclein analyzed by fluorogenic derivatization-liquid chromatography/tandem mass spectrometry: identification of actin and several ribosomal proteins as negative markers at early Parkinson's disease stages
Ichibangase T, Saimaru H, Takamura N, Kuwahara T, Koyama A, Iwatsubo T, Imai K.
Biomed Chromatogr Early Edition: published 15-Oct-2007
Calorimetry outside the box: a new window into the plasma proteome
Garbett NC, Miller JJ, Jenson AB, Chaires JB.
Biophys J Early Edition: published 19-Oct-2007
Proteomics Analysis of Conditioned Media from Three Breast Cancer Cell Lines: A Mine for Biomarkers and Therapeutic Targets
Vathany Kulasingam and Eleftherios P. Diamandis
Mol Cell Proteomics (2007) 6(11): 1997-2011
Proteomic Identification of Endothelial Proteins Isolated in Situ from Atherosclerotic Aorta via Systemic Perfusion
Jiang Wu, Wei Liu, Eric Sousa, Yongchang Qiu, Debra D. Pittman, Vasu Maganti, Jeffrey Feldman, Davinder Gill, Zhijian Lu, Andrew J. Dorner, Robert Schaub, and Xiang-Yang Tan
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4728-4736
Proteomic evaluation of pathways associated with dexamethasone-mediated apoptosis and resistance in multiple myeloma
Rees-Unwin KS, Craven RA, Davenport E, Hanrahan S, Totty NF, Dring AM, Banks RE, J Morgan G, Davies FE.
Br J Haematol (2007) 139(4): 559-67
The heat shock response and chaperones/heat shock proteins in brain tumors: surface expression, release, and possible immune consequences
Graner MW, Cumming RI, Bigner DD.
J Neurosci (2007) 27(42): 11214-27
Toward a better understanding of preeclampsia: Comparative proteomic analysis of preeclamptic placentas
Young Nam Kim, Hyoung Kyu Kim, Mohamad Warda, Nari Kim, Won Sun Park, Ab del Bary Prince, Dae Hoon Jeong, Dae Shim Lee, Ki Tae Kim, Jin Han
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1625-1636
Moving forward in colorectal cancer research, what proteomics has to tell
Bitarte N, Bandres E, Zarate R, Ramirez N, Garcia-Foncillas J.
World J Gastroenterol (2007) 13(44): 5813-21
Comparative proteomic characterization of articular cartilage tissue from normal donors and patients with osteoarthritis
Wu J, Liu W, Bemis A, Wang E, Qiu Y, Morris EA, Flannery CR, Yang Z.
Arthritis Rheum (2007) 56(11): 3675-3684
Plasma proteome changes in type 2 diabetes mellitus subjects with low or high early insulin response
Sundsten T, Zethelius B, Berne C, Bergsten P.
Clin Sci (Lond) Early Edition: published 26-Oct-2007
Apolipoprotein A1: A new serum marker correlated to JAK2 V617F proportion at diagnosis in patients with polycythemia vera
Pascal Mossuz, Ali Bouamrani, Sabine Brugičre, Marie Arlotto, Sylvie Hermouet, Eric Lippert, François Laporte, François Girodon, Irčne Dobo, Praloran Vincent, Jérome Garin, Jean Yves Cahn, François Berger
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1605-1612
Analytical Validation of Serum Proteomic Profiling for Diagnosis of Prostate Cancer; Sources of Sample Bias
McLerran D, Grizzle WE, Feng Z, Bigbee WL, Banez LL, Cazares LH, Chan DW, Diaz J, Izbicka E, Kagan J, Malehorn DE, Malik G, Oelschlager D, Partin A, Randolph T, Rosenzweig N, Srivastava S, Srivastava S, Thompson IM, Thornquist M, Troyer D, Yasui Y, Zhang Z, Zhu L, Semmes OJ.
Clin Chem Early Edition: published 2-Nov-2007
A novel magnetic bead-based assay with high sensitivity and selectivity for analysis of telomerase in exfoliated cells from patients with bladder and colon cancer
Julie Rothacker, Robert G. Ramsay, Daniel Ciznadija, Emma Gras, Craig B. Neylon, Ngaire J. Elwood, David Bouchier-Hayes, Peter Gibbs, Mark A. Rosenthal, Edouard C. Nice
ELECTROPHORESIS (2007) 28(23): 4435-4446
Proteomic analysis of proteins from bronchoalveolar lavage fluid reveals the action mechanism of ultrafine carbon black-induced lung injury in mice
Chih-Ching Chang, Shu-Hui Chen, Shih-Hsin Ho, Chun-Yuh Yang, Hong-Da Wang, Mei-Ling Tsai
PROTEOMICS (2007) 7(23): 4388-4397
Molecular epidemiology and biomarkers in etiologic cancer research: the new in light of the old
Vineis P, Perera F.
Cancer Epidemiol Biomarkers Prev (2007) 16(10): 1954-65
Prominent synaptic and metabolic abnormalities revealed by proteomic analysis of the dorsolateral prefrontal cortex in schizophrenia and bipolar disorder
Pennington K, Beasley CL, Dicker P, Fagan A, English J, Pariante CM, Wait R, Dunn MJ, Cotter DR.
Mol Psychiatry Early Edition: published 16-Oct-2007
Proteomic analysis of epithelium-denuded human amniotic membrane as a limbal stem cell niche
Baharvand H, Heidari M, Ebrahimi M, Valadbeigi T, Salekdeh GH.
Mol Vis (2007) 13: 1711-21.
Clinical proteomics: discovery of cancer biomarkers using mass spectrometry and bioinformatics approaches--a prostate cancer perspective
Matharoo-Ball B, Ball G, Rees R.
Vaccine (2007) 25(Suppl 2): B110-21
A Novel Panel of Cerebrospinal Fluid Biomarkers for the Differential Diagnosis of Alzheimer's Disease versus Normal Aging and Frontotemporal Dementia
Simonsen AH, McGuire J, Podust VN, Hagnelius NO, Nilsson TK, Kapaki E, Vassilopoulos D, Waldemar G.
Dement Geriatr Cogn Disord (2007) 24(6): 434-440
Serum protein oxidation and apolipoprotein CIII levels in people with systemic lupus erythematosus with and without nephritis
Morgan PE, Sturgess AD, Hennessy A, Davies MJ.
Free Radic Res Early Edition: published 22-Oct-2007
Identification of CML-modified Proteins in Hemofiltrate of Diabetic Patients by Proteome Analysis
Schmitt S, Linder M, Standker L, Hammes HP, Preissner KT.
Exp Clin Endocrinol Diabetes Early Edition: published 9-Oct-2007
Proteome- and microarray-based expression analysis of lymphoma cell lines identifies a p53-centered cluster of differentially expressed proteins in mantle cell and follicular lymphoma
Marc Weinkauf, Maximilian Christopeit, Wolfgang Hiddemann, Martin Dreyling
ELECTROPHORESIS (2007) 28(23): 4416-4426
Activation of Cdc2 Contributes to Apoptosis in HPV E6 Expressing Human Keratinocytes in Response to Therapeutic Agents
Liu ZG, Zhao LN, Liu YW, Li TT, Fan DM, Chen JJ.
J Mol Biol (2007) 374(2): 334-45
Lin-7C/VELI3/MALS-3: An Essential Component in Metastasis of Human Squamous Cell Carcinoma
Onda T, Uzawa K, Nakashima D, Saito K, Iwadate Y, Seki N, Shibahara T, Tanzawa H.
Cancer Res (2007) 67(20): 9643-8
Proteomic Analysis of Macrophages: A Potential Way to Identify Novel Proteins Associated with Activation of Macrophages for Tumor Cell Killing
Zhang LB, Zhu HX, Lun YN, Yan DM, Yu LY, Du BR, Zhu X.
Cell Mol Immunol (2007) 4(5): 359-367
Differential Expression of Novel Tyrosine Kinase Substrates during Breast Cancer Development
Yunhao Chen, Lee-Yee Choong, Qingsong Lin, Robin Philp, Chee-Hong Wong, Boon-Keong Ang, Yee-Ling Tan, Marie-Chiew-Shia Loh, Choy-Leong Hew, Nilesh Shah, Brian J. Druker, Poh-Kuan Chong, and Yoon-Pin Lim
Mol Cell Proteomics (2007) 6(12): 2072-2087
Comparative Proteome Analysis of Neural Retinas from Type 2 Diabetic Rats by Two-dimensional Electrophoresis
Wang YD, Wu JD, Jiang ZL, Wang YB, Wang XH, Liu C, Tong MQ.
Curr Eye Res (2007) 32(10): 891-901
Proteomic alterations in heat shock protein 27 and identification of phosphoproteins in ascending aortic aneurysm associated with bicuspid and tricuspid aortic valve
Matt P, Fu Z, Carrel T, Huso DL, Dirnhofer S, Lefkovits I, Zerkowski HR, Van Eyk JE.
J Mol Cell Cardiol (2007) 43(6): 792-801
A Proteomics Analysis of Cell Signaling Alterations in Colorectal Cancer
Juan Madoz-Gurpide, Marta Canamero, Lydia Sanchez, Jose Solano, Patricia Alfonso, and J. Ignacio Casal
Mol Cell Proteomics (2007) 6(12): 2150-2164
Tumor antigens eliciting autoantibody response in cancer of gingivo-buccal complex
Sanjeev Shukla, Rukmini B. Govekar, Ravi Sirdeshmukh, Curam S. Sundaram, Anil K. D'Cruz, K. Alok Pathak, Shubhada V. Kane, Surekha M. Zingde
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1592-1604
Proteomics in pediatric research and practice
Hunsucker SW, Accurso FJ, Duncan MW.
Adv Pediatr (2007) 54: 9-28
Electrophoretic methods for analysis of urinary polypeptides in IgA-associated renal diseases
Bruce A. Julian, Stefan Wittke, Jan Novak, David M. Good, Joshua J. Coon, Markus Kellmann, Petra Zürbig, Eric Schiffer, Marion Haubitz, Zina Moldoveanu, Shannon M. Calcatera, Robert J. Wyatt, Josef Sýkora, Eva Sládková, Ondrej Hes, Harald Mischak, Brendan M. McGuire
ELECTROPHORESIS (2007) 28(23): 4469-4483
Functional, molecular and proteomic characterization of bone marrow mesenchymal stem cells in rheumatoid arthritis
Kastrinaki MC, Sidiropoulos P, Roche S, Ringe J, Lehmann S, Kritikos H, Vlahava VM, Delorme B, Eliopoulos G, Jorgensen C, Charbord P, Haupl T, Boumpas DT, Papadaki HA.
Ann Rheum Dis Early Edition: published 5-Oct-2007
Proteome analysis of substantia nigra and striatal tissue in the mouse MPTP model of Parkinson's disease
Xin Zhao, Quan Li, Lei Zhao, XiaoPing Pu
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1559-1569
Protein Expression in Sputum of Smokers and Chronic Obstructive Pulmonary Disease Patients: A Pilot Study by CapLC-ESI-Q-TOF
Begoña Casado, Paolo Iadarola, Lewis K. Pannell, Maurizio Luisetti, Angelo Corsico, Elena Ansaldo, Ilaria Ferrarotti, Piera Boschetto, and James N. Baraniuk
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4615-4623
Pulmonary Genomics, Proteomics and PLUNCs
Barnes FA, Bingle L, Bingle CD.
Am J Respir Cell Mol Biol Early Edition: published 1-Nov-2007
CSF proteomic fingerprints for HIV-associated cognitive impairment
Laspiur JP, Anderson ER, Ciborowski P, Wojna V, Rozek W, Duan F, Mayo R, Rodriguez E, Plaud-Valentin M, Rodriguez-Orengo J, Gendelman HE, Melendez LM.
J Neuroimmunol (2007) 192(1-2): 157-70
Identification of Human Cytomegalovirus UL84 viral and cellular encoded binding partners using Proteomics Analysis
Gao Y, Colletti K, Pari GS.
J Virol (2008) 82(1): 96-104
2-D difference gel electrophoresis of the lung squamous cell carcinoma versus normal sera demonstrates consistent alterations in the levels of ten specific proteins
Paul Dowling, Lorraine O'Driscoll, Paula Meleady, Michael Henry, Shunil Roy, Jo Ballot, Michael Moriarty, John Crown, Martin Clynes
ELECTROPHORESIS (2007) 28(23): 4302-4310
American Society of Clinical Oncology 2007 Update of Recommendations for the Use of Tumor Markers in Breast Cancer
Harris L, Fritsche H, Mennel R, Norton L, Ravdin P, Taube S, Somerfield MR, Hayes DF, Bast RC Jr.
J Clin Oncol (2007) 25(33): 5287-312
14-3-3 proteins within the hypothalamic-neurohypophyseal system of the osmotically stressed rat: transcriptomic and proteomic studies
Gouraud SS, Yao ST, Heesom KJ, Paton JF, Murphy D.
J Neuroendocrinol (2007) 19(11): 913-22
Comparison of two tandem mass spectrometry-based methods for analyzing the proteome of healthy human lens fibers
Zhang C, Liu P, Wang N, Li Y, Wang L.
Mol Vis (2007) 13: 1873-7.
Proteomics of the aqueous humor in healthy New Zealand rabbits
Miroslava Stastna, Ashley Behrens, Guillermo Noguera, Samantha Herretes, Peter McDonnell, Jennifer E. Van Eyk
PROTEOMICS (2007) 7(23): 4358-4375
Proteomics Analysis of Cytokine-induced Dysfunction and Death in Insulin-producing INS-1E Cells: New Insights into the Pathways Involved
Wannes D'Hertog, Lut Overbergh, Kasper Lage, Gabriela Bonfim Ferreira,Michael Maris, Conny Gysemans, Daisy Flamez, Alessandra Kupper Cardozo, Gert Van den Bergh, Liliane Schoofs, Lut Arckens, Yves Moreau, Daniel Aaen Hansen, Decio Laks Eizirik, Ettienne Waelkens, and Chantal Mathieu
Mol Cell Proteomics (2007) 6(12): 2180-2199
Proteomic analysis of Tunisian grapevine cultivar Razegui under salt stress
Jellouli N, Ben Jouira H, Skouri H, Ghorbel A, Gourgouri A, Mliki A.
J Plant Physiol Early Edition: published 15-Oct-2007
Functional proteome analysis of human platelets
Lewandrowski U, Zahedi RP, Moebius J, Sickmann A.
Hamostaseologie (2007) 27(4): 241-245
Proteomic analysis of stargazer mutant mouse neuronal proteins involved in absence seizure
Ryu MJ, Lee C, Kim J, Shin HS, Yu MH.
J Neurochem Early Edition: published 31-Oct-2007
The heat shock response and chaperones/heat shock proteins in brain tumors: surface expression, release, and possible immune consequences
Graner MW, Cumming RI, Bigner DD.
J Neurosci (2007) 27(42): 11214-27
Membrane proteomic analysis of human mesenchymal stromal cells during adipogenesis
Ju Ah Jeong, Kyung-Min Ko, Hyung Soon Park, Jinsook Lee, Cholsoon Jang, Choon-Ju Jeon, Gou Young Koh, Hoeon Kim
PROTEOMICS (2007) 7(22): 4181-4191
A Combined Proteome and Transcriptome Analysis of Developing Medicago truncatula Seeds: Evidence for Metabolic Specialization of Maternal and Filial Tissues
Karine Gallardo, Christian Firnhaber, Helene Zuber, Delphine Hericher,Maya Belghazi, Celine Henry, Helge Kuster, and Richard Thompson
Mol Cell Proteomics (2007) 6(12): 2165-2179
Proteomic analysis of rainbow trout (Oncorhynchus mykiss, Walbaum) serum after administration of probiotics in diets
Brunt J, Hansen R, Jamieson DJ, Austin B.
Vet Immunol Immunopathol Early Edition: published 2-Oct-2007
Use of functional highly purified human platelets for the identification of new proteins of the IPP signaling pathway
Birschmann I, Mietner S, Dittrich M, Pfrang J, Dandekar T, Walter U.
Thromb Res Early Edition: published 9-Oct-2007
Evidence for a protective response by the gill proteome of rainbow trout exposed to X-ray induced bystander signals
Richard W. Smith, Jiaxi Wang, Carol P. Bucking, Carmel E. Mothersill, Colin B. Seymour
PROTEOMICS (2007) 7(22): 4171-4180
Identification of two thaumatin-like proteins (TLPs) in the pollination drop of hybrid yew that may play a role in pathogen defence during pollen collection
O'leary SJ, Poulis BA, von Aderkas P.
Tree Physiol (2007) 27(12): 1649-59
Proteomics Characterization of Mouse Kidney Peroxisomes by Tandem Mass Spectrometry and Protein Correlation Profiling
Sebastian Wiese, Thomas Gronemeyer, Rob Ofman, Markus Kunze, Claudia P. Grou, Jose A. Almeida, Martin Eisenacher, Christian Stephan, Heiko Hayen, Lukas Schollenberger, Thomas Korosec, Hans R. Waterham, Wolfgang Schliebs, Ralf Erdmann, Johannes Berger, Helmut E. Meyer, Wilhelm Just, Jorge E. Azevedo, Ronald J. A. Wanders, and Bettina Warscheid
Mol Cell Proteomics (2007) 6(12): 2045-2057
Differential Proteome Analysis of Hagfish Dental and Somatic Skeletal Muscles
Chiu KH, Huang HW, Mok HK.
Mar Biotechnol (NY) (2007) 9(6): 689-700
A Proteomics Study of Brassinosteroid Response in Arabidopsis
Zhiping Deng, Xin Zhang, Wenqiang Tang, Juan A. Oses-Prieto, Nagi Suzuki, Joshua M. Gendron, Huanjing Chen, Shenheng Guan, Robert J. Chalkley, T. Kaye Peterman, Alma L. Burlingame, and Zhi-Yong Wang
Mol Cell Proteomics (2007) 6(12): 2058-2071
Effect of the 1BL.1RS translocation on the wheat endosperm, as revealed by proteomic analysis
Samy Gobaa, Emmanuelle Bancel, Geert Kleijer, Peter Stamp, Gérard Branlard
PROTEOMICS (2007) 7(23): 4349-4357
Blood serum proteome for welfare evaluation in pigs
Roncada P, Begni B, Amadori M, Cristoni S, Archetti IL, Boldetti C, Fortin R, Deriu F, Greppi GF.
Vet Res Commun (2007) 31(Suppl 1): 321-5
Heart protein expression related to age and sex in mice and humans
Diedrich M, Tadic J, Mao L, Wacker MA, Nebrich G, Hetzer R, Regitz-Zagrosek V, Klose J.
Int J Mol Med (2007) 20(6): 865-74
Exposure of mouse oocytes to 1,2-propanediol during slow freezing alters the proteome
Katz-Jaffe MG, Larman MG, Sheehan CB, Gardner DK.
Fertil Steril Early Edition: published 31-Oct-2007
Proteomics in free-living Mus spretus to monitor terrestrial ecosystems
Rafael Montes-Nieto, Carlos A. Fuentes-Almagro, Daniel Bonilla-Valverde, María-José Prieto-Álamo, Juan Jurado, Montserrat Carrascal, José Luis Gómez-Ariza, Juan López-Barea, Carmen Pueyo
PROTEOMICS (2007) 7(23): 4376-4387
Differential distribution of proteins and lipids in detergent-resistant and detergent-soluble domains in rod outer segment plasma membranes and disks
Elliott MH, Nash ZA, Takemori N, Fliesler SJ, McClellan ME, Naash MI.
J Neurochem Early Edition: published 18-Oct-2007
Mapping lymphocyte plasma membrane proteins: a proteomic approach
Peirce MJ, Saklatvala J, Cope AP, Wait R.
Methods Mol Med (2007) 136: 361-7
Comparative proteomics of industrial lager yeast reveals differential expression of the cerevisiae and non-cerevisiae parts of their genomes
Robert Caesar, Johan Palmfeldt, John S. Gustafsson, Ellinor Pettersson, Sayed Hossein Hashemi, Anders Blomberg
PROTEOMICS (2007) 7(22): 4135-4147
Prominent synaptic and metabolic abnormalities revealed by proteomic analysis of the dorsolateral prefrontal cortex in schizophrenia and bipolar disorder
Pennington K, Beasley CL, Dicker P, Fagan A, English J, Pariante CM, Wait R, Dunn MJ, Cotter DR.
Mol Psychiatry Early Edition: published 16-Oct-2007
Periplasmic Proteins of the Extremophile Acidithiobacillus ferrooxidans: A High Throughput Proteomics Analysis
An Chi, Lissette Valenzuela, Simon Beard, Aaron J. Mackey, Jeffrey Shabanowitz, Donald F. Hunt, and Carlos A. Jerez
Mol Cell Proteomics (2007) 6(12): 2239-2251
Responses to arsenate stress by Comamonas sp. strain CNB-1 at genetic and proteomic levels
Zhang Y, Ma YF, Qi SW, Meng B, Chaudhry MT, Liu SQ, Liu SJ.
Microbiology (2007) 153(Pt 11): 3713-3721
Homologous housekeeping proteins in Nocardia - the NoDaMS proteomic database
Koenig S, Mehlich AM, Ackermann D, Hamid ME, Saeed NS, Mukhtar M, Hassan ME.
Front Biosci (2008) 13: 842-55.
The cytoplasmic phosphoproteome of the Gram-negative bacterium Campylobacter jejuni: Evidence for modification by unidentified protein kinases
Sébastien Voisin, David C. Watson, Luc Tessier, Wen Ding, Simon Foote, Smita Bhatia, John F. Kelly, N. Martin Young
PROTEOMICS (2007) 7(23): 4338-4348
Proteomic Analyses of a Robust versus a Poor Chicken Gastrointestinal Colonizing Isolate of Campylobacter jejuni
Bruce S. Seal, Kelli L. Hiett, Robin L. Kuntz, Rebekah Woolsey, Kathleen M. Schegg, Mary Ard, and Alain Stintzi
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4582-4591
Mass spectrometry-based prokaryote gene annotation
Yoko Ishino, Hitomi Okada, Masahiko Ikeuchi, Hisaaki Taniguchi
PROTEOMICS (2007) 7(22): 4053-4065
Steady state protein levels in Geobacter metallireducens grown with iron (III) citrate or nitrate as terminal electron acceptor
Angela J. Ahrendt, Sandra L. Tollaksen, Carl Lindberg, Wenhong Zhu, John R. Yates III, Kelly P. Nevin, György Babnigg, Derek R. Lovley, Carol S. Giometti
PROTEOMICS (2007) 7(22): 4148-4157
Cytoplasmic proteome reference map for a glutamic acid-producing Corynebacterium glutamicum ATCC 14067
Liyuan Li, Masaru Wada, Atsushi Yokota
PROTEOMICS (2007) 7(23): 4317-4322
Strain-specific proteome responses of Pseudomonas aeruginosa to biofilm-associated growth and to calcium
Patrauchan MA, Sarkisova SA, Franklin MJ.
Microbiology (2007) 153(Pt 11): 3838-3851
Comparative Proteomics Analyses Reveal a Potential Biomarker for the Detection of Vancomycin-Intermediate Staphylococcus aureus Strains
Jolyne Drummelsmith, Eric Winstall, Michel G. Bergeron, Guy G. Poirier, and Marc Ouellette
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4690-4702
Quantitative proteomics of intracellular Porphyromonas gingivalis
Qiangwei Xia, Tiansong Wang, Fred Taub, Yoonsuk Park, Cindy A. Capestany, Richard J. Lamont, Murray Hackett
PROTEOMICS (2007) 7(23): 4323-4337
Up-regulation, Modification, and Translocation of S100A6 Induced by Exposure to Ionizing Radiation Revealed by Proteomics Profiling
Lukas M. Orre, Maria Pernemalm, Johan Lengqvist, Rolf Lewensohn, and Janne Lehtio
Mol Cell Proteomics (2007) 6(12): 2122-2131
Overexpression of annexin a1 induced by terephthalic acid calculi in rat bladder cancer
Lunbiao Cui, Yubang Wang, Yuan Shi, Zhengdong Zhang, Yankai Xia, Hong Sun, Shouling Wang, Jianfeng Chen, Wei Zhang, Qiang Lu, Ling Song, Qingyi Wei, Ruiwen Zhang, Xinru Wang
PROTEOMICS (2007) 7(22): 4192-4202
Treatment of colon cancer cells using the cytosine deaminase/5-fluorocytosine suicide system induces apoptosis, modulation of the proteome, and Hsp90{beta} phosphorylation
Negroni L, Samson M, Guigonis JM, Rossi B, Pierrefite-Carle V, Baudoin C.
Mol Cancer Ther (2007) 6(10): 2747-56
Evidence for a protective response by the gill proteome of rainbow trout exposed to X-ray induced bystander signals
Richard W. Smith, Jiaxi Wang, Carol P. Bucking, Carmel E. Mothersill, Colin B. Seymour
PROTEOMICS (2007) 7(22): 4171-4180
Quantitative proteome analysis of cisplatin-induced apoptotic Jurkat T cells by stable isotope labeling with amino acids in cell culture, SDS-PAGE, and LC-MALDI-TOF/TOF MS
Frank Schmidt, Hanne K. Hustoft, Margarita Strozynski, Christiane Dimmler, Thomas Rudel, Bernd Thiede
ELECTROPHORESIS (2007) 28(23): 4359-4368
Induction of growth arrest and polycomb gene expression by reversine allows C2C12 cells to be reprogrammed to various differentiated cell types
Sze Wan Shan, Mei Kuen Tang, Pak Ham Chow, Miguel Maroto, Dong Qing Cai, Kenneth K. H. Lee
PROTEOMICS (2007) 7(23): 4303-4316
Toxicoproteomics and its application to human health risk assessment
Yue Ge, R. Julian Preston, Russell D. Owen
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1613-1624
Fine oil combustion particle bioavailable constituents induce molecular profiles of oxidative stress, altered function, and cellular injury in cardiomyocytes
Knuckles TL, Dreher KL.
J Toxicol Environ Health A (2007) 70(21): 1824-37
Protein expression changed by nicotine in rat vascular smooth muscle cells
Wang Z, Wu W, Fang X, Wang Y, Xiao C, Zhao R, Wang L, Qiao Z.
J Physiol Biochem (2007) 63(2): 161-9
Proteomic characterization of Sophoraflavone J-induced apoptosis in HepG2 cells
Crystal Sao-Fong Cheung, Po-Ming Hon, Kwok-Pui Fung, Shannon Wing-Ngor Au
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1532-1544
Dominant negative Rac1 attenuates paclitaxel-induced apoptosis in human melanoma cells through upregulation of heat shock protein 27: A functional proteomic analysis
Shao Chin Lee, Nigel Sim, Marie-Veronique Clement, Sanjiv Kumar Yadav, Shazib Pervaiz
PROTEOMICS (2007) 7(22): 4112-4122
Proteomic Analysis of Cellular Responses to Different Concentrations of anti-Benzo(a)pyrene-7,8-dihydrodiol-9,10-epoxide in Human Amniotic Epithelial FL Cells
Wenyan Shen, Hui Liu, and Yingnian Yu
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4737-4748
Utilizing endoscopic technology to reveal real-time proteomic alterations in response to chemoprevention
Masako Nakanishi, Antoine Ménoret, Glenn S. Belinsky, Charles Giardina, Cassandra A. Godman, Anthony T. Vella, Daniel W. Rosenberg
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1660-1666
A proteomic kinetic analysis of IGROV1 ovarian carcinoma cell line response to cisplatin treatment
Karen Le Moguen, Hubert Lincet, Paulo Marcelo, Edwige Lemoisson, Natacha Heutte, Marilyne Duval, Laurent Poulain, Joëlle Vinh, Pascal Gauduchon, Bruno Baudin
PROTEOMICS (2007) 7(22): 4090-4101
Forward-phase and reverse-phase protein microarray
Zong Y, Zhang S, Chen HT, Zong Y, Shi Y.
Methods Mol Biol (2007) 381: 363-74
Antibody Profiling by Proteome Microarray Reveals the Immunogenicity of the Attenuated Smallpox Vaccine, Modified Vaccinia Virus Ankara (MVA) is Comparable to Dryvax(R)
Davies DH, Wyatt LS, Newman FK, Earl PL, Chun S, Hernandez JE, Molina DM, Hirst S, Moss B, Frey SE, Felgner PL.
J Virol Early Edition: published 31-Oct-2007
Enhanced N-Glycosylation Site Analysis of Sialoglycopeptides by Strong Cation Exchange Prefractionation Applied to Platelet Plasma Membranes
Urs Lewandrowski, Rene P. Zahedi, Jan Moebius, Ulrich Walter, and Albert Sickmann
Mol Cell Proteomics (2007) 6(11): 1933-1941
Identification of intra- and intermolecular disulphide bonding in the plant mitochondrial proteome by diagonal gel electrophoresis
Alison M. Winger, Nicolas L. Taylor, Joshua L. Heazlewood, David A. Day, A. Harvey Millar
PROTEOMICS (2007) 7(22): 4158-4170
Fe(3)O(4)@Al(2)O(3) magnetic core-shell microspheres for rapid and highly specific capture of phosphopeptides with mass spectrometry analysis
Li Y, Liu Y, Tang J, Lin H, Yao N, Shen X, Deng C, Yang P, Zhang X.
J Chromatogr A (2007) 1172(1): 57-71
Proteomics Reveals N-Linked Glycoprotein Diversity in Caenorhabditis elegans and Suggests an Atypical Translocation Mechanism for Integral Membrane Proteins
Hiroyuki Kaji, Jun-ichi Kamiie, Hirotaka Kawakami, Kazuki Kido, YoshioYamauchi, Takashi Shinkawa, Masato Taoka, Nobuhiro Takahashi, and Toshiaki Isobe
Mol Cell Proteomics (2007) 6(12): 2100-2109
Highly Efficient Phosphopeptide Enrichment by Calcium Phosphate Precipitation Combined with Subsequent IMAC Enrichment
Xumin Zhang, Juanying Ye, Ole N. Jensen, and Peter Roepstorff
Mol Cell Proteomics (2007) 6(11): 2032-2042
A Chemical Proteomics Approach to Phosphatidylinositol 3-Kinase Signaling in Macrophages
Christian Pasquali, Dominique Bertschy-Meier, Christian Chabert, Marie-Laure Curchod, Christian Arod, Randy Booth, Karl Mechtler, Francis Vilbois, Ioannis Xenarios, Colin G. Ferguson, Glenn D. Prestwich, Montserrat Camps, and Christian Rommel
Mol Cell Proteomics (2007) 6(11): 1829-1841
Proteomic alterations in heat shock protein 27 and identification of phosphoproteins in ascending aortic aneurysm associated with bicuspid and tricuspid aortic valve
Matt P, Fu Z, Carrel T, Huso DL, Dirnhofer S, Lefkovits I, Zerkowski HR, Van Eyk JE.
J Mol Cell Cardiol (2007) 43(6): 792-801
PhosPhAt: a database of phosphorylation sites in Arabidopsis thaliana and a plant-specific phosphorylation site predictor
Heazlewood JL, Durek P, Hummel J, Selbig J, Weckwerth W, Walther D, Schulze WX.
Nucleic Acids Res Early Edition: published 4-Nov-2007
Differential Expression of Novel Tyrosine Kinase Substrates during Breast Cancer Development
Yunhao Chen, Lee-Yee Choong, Qingsong Lin, Robin Philp, Chee-Hong Wong, Boon-Keong Ang, Yee-Ling Tan, Marie-Chiew-Shia Loh, Choy-Leong Hew, Nilesh Shah, Brian J. Druker, Poh-Kuan Chong, and Yoon-Pin Lim
Mol Cell Proteomics (2007) 6(12): 2072-2087
Selective Acylation of Primary Amines in Peptides and Proteins
Nicolas Abello, Huib A. M. Kerstjens, Dirkje S. Postma, and Rainer Bischoff
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4770-4776
Quantitative Profiling of Ubiquitylated Proteins Reveals Proteasome Substrates and the Substrate Repertoire Influenced by the Rpn10 Receptor Pathway
Thibault Mayor, Johannes Graumann, Jennifer Bryan, Michael J. MacCoss,and Raymond J. Deshaies
Mol Cell Proteomics (2007) 6(11): 1885-1895
NetworKIN: a resource for exploring cellular phosphorylation networks
Linding R, Juhl Jensen L, Pasculescu A, Olhovsky M, Colwill K, Bork P, Yaffe MB, Pawson T.
Nucleic Acids Res Early Edition: published 2-Nov-2007
Evaluation of protein N-glycosylation in 2-DE: Erythropoietin as a study case
Esther Llop, Ricardo Gutiérrez Gallego, Viviana Belalcazar, Gerrit J. Gerwig, Johannis P. Kamerling, Jordi Segura, José A. Pascual
PROTEOMICS (2007) 7(23): 4278-4291
PhosphoPep-a phosphoproteome resource for systems biology research in Drosophila Kc167 cells
Bodenmiller B, Malmstrom J, Gerrits B, Campbell D, Lam H, Schmidt A, Rinner O, Mueller LN, Shannon PT, Pedrioli PG, Panse C, Lee HK, Schlapbach R, Aebersold R.
Mol Syst Biol (2007) 3: 139
N-Glycosylation Site Occupancy in Serum Glycoproteins Using Multiple Reaction Monitoring Liquid Chromatography-Mass Spectrometry
Andreas J. Hulsmeier, Patricie Paesold-Burda, and Thierry Hennet
Mol Cell Proteomics (2007) 6(12): 2132-2138
Global Profiling of Phosphopeptides by Titania Affinity Enrichment
Jiang Wu, Quazi Shakey, Wei Liu, Alwin Schuller, and Maximillian T. Follettie
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4684-4689
Identification and analysis of ?1,6-fucosylated proteins in human normal liver tissues by a target glycoproteomic approach
Zhi Dai, Jia Fan, Yinkun Liu, Jian Zhou, Dousheng Bai, Changjun Tan, Kun Guo, Yu Zhang, Yan Zhao, Pengyuan Yang
ELECTROPHORESIS (2007) 28(23): 4382-4391
The cytoplasmic phosphoproteome of the Gram-negative bacterium Campylobacter jejuni: Evidence for modification by unidentified protein kinases
Sébastien Voisin, David C. Watson, Luc Tessier, Wen Ding, Simon Foote, Smita Bhatia, John F. Kelly, N. Martin Young
PROTEOMICS (2007) 7(23): 4338-4348
Selective Enrichment of Glycopeptides from Glycoprotein Digests Using Ion-Pairing Normal-Phase Liquid Chromatography
Wen Ding, Jennifer J. Hill, and John Kelly
ANALYTICAL CHEMISTRY (2007) 79(23): 8891-8899
Profiling Phosphoproteins of Yeast Mitochondria Reveals a Role of Phosphorylation in Assembly of the ATP Synthase
Jorg Reinders, Karina Wagner, Rene P. Zahedi, Diana Stojanovski, BeateEyrich, Martin van der Laan, Peter Rehling, Albert Sickmann, Nikolaus Pfanner, and Chris Meisinger
Mol Cell Proteomics (2007) 6(11): 1896-1906
Glycosylation profiling of immunoglobulin G (IgG) subclasses from human serum
Manfred Wuhrer, Jord C. Stam, Fleur E. van de Geijn, Carolien A. M. Koeleman, C. Theo Verrips, Radboud J. E. M. Dolhain, Cornelis H. Hokke, André M. Deelder
PROTEOMICS (2007) 7(22): 4070-4081
Phosphoproteome profile of human liver Chang's cell based on 2-DE with fluorescence staining and MALDI-TOF/TOF-MS
Jinfeng Liu, Yun Cai, Jinglan Wang, Qi Zhou, Bing Yang, Zhuang Lu, Liyan Jiao, Dongyang Zhang, Shaohui Sui, Ying Jiang, Wantao Ying, Xiaohong Qian
ELECTROPHORESIS (2007) 28(23): 4348-4358
Quantitative Phosphoproteome Profiling of Wnt3a-mediated Signaling Network: Indicating the Involvement of Ribonucleoside-diphosphate Reductase M2 Subunit Phosphorylation at Residue Serine 20 in Canonical Wnt Signal Transduction
Liu-Ya Tang, Ning Deng, Lian-Shui Wang, Jie Dai, Zheng-Long Wang, Xiao-Sheng Jiang, Su-Jun Li, Long Li, Quan-Hu Sheng, Dian-Qing Wu, Lin Li, and Rong Zeng
Mol Cell Proteomics (2007) 6(11): 1952-1967
Endogenous Phosphotyrosine Signaling in Zebrafish Embryos
Simone Lemeer, Rob Ruijtenbeek, Martijn W. H. Pinkse, Chris Jopling, Albert J. R. Heck, Jeroen den Hertog, and Monique Slijper
Mol Cell Proteomics (2007) 6(12): 2088-2099
Analysis of Dynamic Changes in Post-translational Modifications of Human Histones during Cell Cycle by Mass Spectrometry
Debora Bonenfant, Harry Towbin, Michele Coulot, Patrick Schindler, Dieter R. Mueller, and Jan van Oostrum
Mol Cell Proteomics (2007) 6(11): 1917-1932
Adaptation of the ?in-gel release method? to N-glycome analysis of low-milligram amounts of material
Dubravko Rendi?, Iain B. H. Wilson, Gert Lubec, Martin Gutternigg, Friedrich Altmann, Renaud Léonard
ELECTROPHORESIS (2007) 28(23): 4484-4492
Using Product Kernels to Predict Protein Interactions
Martin S, Brown WM, Faulon JL.
Adv Biochem Eng Biotechnol Early Edition: published 6-Oct-2007
SPINE: A method for the rapid detection and analysis of protein-protein interactions in vivo
Christina Herzberg, Lope Andrés Flórez Weidinger, Bastian Dörrbecker, Sebastian Hübner, Jörg Stülke, Fabian M. Commichau
PROTEOMICS (2007) 7(22): 4032-4035
Proteomic analysis of p16ink4a-binding proteins
Elielson Souza-Rodrígues, Josep M. Estanyol, Erica Friedrich-Heineken, Eva Olmedo, Jorge Vera, Nuria Canela, Sonia Brun, Neus Agell, Ulrich Hübscher, Oriol Bachs, Montserrat Jaumot
PROTEOMICS (2007) 7(22): 4102-4111
Structural Analysis of Multiprotein Complexes by Cross-linking, Mass Spectrometry, and Database Searching
Alessio Maiolica, Davide Cittaro, Dario Borsotti, Lau Sennels, ClaudioCiferri, Cataldo Tarricone, Andrea Musacchio, and Juri Rappsilber
Mol Cell Proteomics (2007) 6(12): 2200-2211
A novel tandem affinity purification strategy for the efficient isolation and characterisation of native protein complexes
Christian Johannes Gloeckner, Karsten Boldt, Annette Schumacher, Ronald Roepman, Marius Ueffing
PROTEOMICS (2007) 7(23): 4228-4234
Bacteriome.org an integrated protein interaction database for E. coli
Su C, Peregrin-Alvarez JM, Butland G, Phanse S, Fong V, Emili A, Parkinson J.
Nucleic Acids Res Early Edition: published 16-Oct-2007
The role of sulfur and sulfur isotope dilution analysis in quantitative protein analysis
Rappel C, Schaumloffel D.
Anal Bioanal Chem Early Edition: published 6-Nov-2007
Analysis of DIGE data using a linear mixed model allowing for protein-specific dye effects
Morten Krogh, Yingchun Liu, Sofia Waldemarson, Barbara Valastro, Peter James
PROTEOMICS (2007) 7(23): 4235-4244
Isotope-labeled Protein Standards: Toward Absolute Quantitative Proteomics
Virginie Brun, Alain Dupuis, Annie Adrait, Marlene Marcellin, Damien Thomas, Magali Court, Francois Vandenesch, and Jerome Garin
Mol Cell Proteomics (2007) 6(12): 2139-2149
A Metal-coded Affinity Tag Approach to Quantitative Proteomics
Robert Ahrends, Stefan Pieper, Andreas Kuhn, Hardy Weisshoff, Meike Hamester, Torsten Lindemann, Christian Scheler, Karola Lehmann, Kerstin Taubner, and Michael W. Linscheid
Mol Cell Proteomics (2007) 6(11): 1907-1916
Lipid raft proteomics: more than just detergent-resistant membranes
Foster LJ, Chan QW.
Subcell Biochem (2007) 43: 35-47
Quantitative, Multiplexed Assays for Low Abundance Proteins in Plasma by Targeted Mass Spectrometry and Stable Isotope Dilution
Hasmik Keshishian, Terri Addona, Michael Burgess, Eric Kuhn, and Steven A. Carr
Mol Cell Proteomics (2007) 6(12): 2212-2229
Top-Down Quantitation and Characterization of SILAC-Labeled Proteins
Waanders LF, Hanke S, Mann M.
J Am Soc Mass Spectrom (2007) 18(11): 2058-64
Optimized protein extraction for quantitative proteomics of yeasts
von der Haar T.
PLoS ONE (2007) 2(10): e1078
Pseudo Internal Standard Approach for Label-Free Quantitative Proteomics
Tabata T, Sato T, Kuromitsu J, Oda Y.
Anal Chem (2007) 79(22): 8440-5
Quantitative Analysis of Proteins via Sulfur Determination by HPLC Coupled to Isotope Dilution ICPMS with a Hexapole Collision Cell
Wang M, Feng W, Lu W, Li B, Wang B, Zhu M, Wang Y, Yuan H, Zhao Y, Chai Z.
Anal Chem (2007) 79(23): 9128-9134
Integration of 18O Labeling and Solution Isoelectric Focusing in a Shotgun Analysis of Mitochondrial Proteins
Jinshan Wang, Peter Gutierrez, Nathan Edwards, and Catherine Fenselau
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4601-4607
Genetic basis of proteome variation in yeast
Foss EJ, Radulovic D, Shaffer SA, Ruderfer DM, Bedalov A, Goodlett DR, Kruglyak L.
Nat Genet (2007) 39(11): 1369-75
Lipid raft proteomics: more than just detergent-resistant membranes
Foster LJ, Chan QW.
Subcell Biochem (2007) 43: 35-47
Proteomics of Pollen Development and Germination
Shaojun Dai, Tai Wang, Xiufeng Yan, and Sixue Chen
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4556-4563
Liquid chromatography combined with mass spectrometry for 13C isotopic analysis in life science research
Jean-Philippe Godin, Laurent-Bernard Fay, Gérard Hopfgartner
Mass Spectrometry Reviews (2007) 26(6): 751-774
Use of SELDI-TOF mass spectrometry for identification of new biomarkers: potential and limitations
Kiehntopf M, Siegmund R, Deufel T.
Clin Chem Lab Med (2007) 45(11): 1435-49
Biomarker Discovery and Related Topics
Andreas Guttman, Laszio Takacs
ELECTROPHORESIS (2007) 28(23): 4259
Proteomic analysis of secreted exosomes
Olver C, Vidal M.
Subcell Biochem (2007) 43: 99-131
Systems nanobiology: from quantitative single molecule biophysics to microfluidic-based single cell analysis
Martini J, Hellmich W, Greif D, Becker A, Merkle T, Ros R, Ros A, Toensing K, Anselmetti D.
Subcell Biochem (2007) 43: 301-21
Biophotonics applied to proteomics
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Subcell Biochem (2007) 43: 323-38
The role of sulfur and sulfur isotope dilution analysis in quantitative protein analysis
Rappel C, Schaumloffel D.
Anal Bioanal Chem Early Edition: published 6-Nov-2007
Supramolecular signalling complexes in the nervous system
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Subcell Biochem (2007) 43: 185-207
Organelle proteome variation among different cell types: lessons from nuclear membrane proteins
Kavanagh DM, Powell WE, Malik P, Lazou V, Schirmer EC.
Subcell Biochem (2007) 43: 51-76
LC-MALDI MS and MS/MS--an efficient tool in proteome analysis
Mueller DR, Voshol H, Waldt A, Wiedmann B, Van Oostrum J.
Subcell Biochem (2007) 43: 355-80
Keynotes on membrane proteomics
Rabilloud T.
Subcell Biochem (2007) 43: 3-11
Microparticles: a new tool for plasma membrane sub-cellular proteomic
Miguet L, Sanglier S, Schaeffer C, Potier N, Mauvieux L, Van Dorsselaer A.
Subcell Biochem (2007) 43: 21-34
Mass spectrometry in nutrition: Understanding dietary health effects at the molecular level
Martin Kussmann, Michael Affolter, Kornél Nagy, Birgit Holst, Laurent B. Fay
Mass Spectrometry Reviews (2007) 26(6): 727-750
Body Fluid Proteomics for Biomarker Discovery: Lessons from the Past Hold the Key to Success in the Future
David M. Good, Visith Thongboonkerd, Jan Novak, Jean-Loup Bascands, Joost P. Schanstra, Joshua J. Coon, Anna Dominiczak, and Harald Mischak
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4549-4555
Synaptosome proteomics
Bai F, Witzmann FA.
Subcell Biochem (2007) 43: 77-98
Protein microchips in biomedicine and biomarker discovery
Sandor Spisak, Zsolt Tulassay, Bela Molnar, Andras Guttman
ELECTROPHORESIS (2007) 28(23): 4261-4273
Two-dimensional BAC/SDS-PAGE for membrane proteomics
Zahedi RP, Moebius J, Sickmann A.
Subcell Biochem (2007) 43: 13-20
Proteomics studies of pancreatic cancer
Ru Chen, Sheng Pan, Ruedi Aebersold, Teresa A. Brentnall
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1582-1591
Automated, systematic determination of protein subcellular location using fluorescence microscopy
Garcia Osuna E, Murphy RF.
Subcell Biochem (2007) 43: 263-76
Recent advances in clinical oncoproteomics
Jain KK.
J BUON (2007) 12(Suppl 1): S31-8
Automated, systematic determination of protein subcellular location using fluorescence microscopy
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Subcell Biochem (2007) 43: 263-76
Microfluidic platform with mass spectrometry detection for the analysis of phosphoproteins
Abdulilah A. Dawoud, Hetal A. Sarvaiya, Iulia M. Lazar
ELECTROPHORESIS (2007) 28(24): 4645-4660
Letter: Specific isotope labeling for the identification of free N-terminal peptide of proteins separated by polyacrylamide gel electrophoresis
Sanchez A, Ramos Y, Solano Y, Gonzalez LJ, Betancourt L, Gil J, Padron G, Besada V.
Eur J Mass Spectrom (Chichester, Eng) (2007) 13(4): 307-9
Identification of enzymes and activity from two-dimensional gel electrophoresis
Afjehi-Sadat L, Lubec G.
Nat Protoc (2007) 2(10): 2318-24
Two-dimensional separation of human plasma proteins using iterative free-flow electrophoresis
Mikkel Nissum, Sabine Kuhfuss, Monika Hauptmann, Christian Obermaier, Ute Sukop, Robert Wildgruber, Gerhard Weber, Christoph Eckerskorn, Johan Malmström
PROTEOMICS (2007) 7(23): 4218-4227
Development of microwave-assisted protein digestion based on trypsin-immobilized magnetic microspheres for highly efficient proteolysis followed by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry analysis
Shuang Lin, Zhenxin Lin, Guoping Yao, Chunhui Deng, Pengyuan Yang, Xiangmin Zhang
Rapid Communications in Mass Spectrometry (2007) 21(23): 3910-3918
Two-dimensional electrophoresis with cationic detergents, a powerful tool for the proteomic analysis of myelin proteins. Part 1: Technical aspects of electrophoresis
Yamaguchi Y, Miyagi Y, Baba H.
J Neurosci Res Early Edition: published 25-Oct-2007
Chip-LC-MS for label-free profiling of human serum
Peter Horvatovich, Natalia I. Govorukhina, Theo H. Reijmers, Ate G. J. van der Zee, Frank Suits, Rainer Bischoff
ELECTROPHORESIS (2007) 28(23): 4493-4505
Evaluation of protein N-glycosylation in 2-DE: Erythropoietin as a study case
Esther Llop, Ricardo Gutiérrez Gallego, Viviana Belalcazar, Gerrit J. Gerwig, Johannis P. Kamerling, Jordi Segura, José A. Pascual
PROTEOMICS (2007) 7(23): 4278-4291
Non-electrophoretic differential detergent fractionation proteomics using frozen whole organs
van den Berg BH, Harris T, McCarthy FM, Lamont SJ, Burgess SC.
Rapid Commun Mass Spectrom (2007) 21(23): 3905-3909
Assessment of protein-incorporated arginine methylation in biological specimens by CZE UV-detection
Angelo Zinellu, Salvatore Sotgia, Bastianina Scanu, Marilena Formato, Luca Deiana, Ciriaco Carru
ELECTROPHORESIS (2007) 28(23): 4452-4458
Specific On-Plate Enrichment of Phosphorylated Peptides for Direct MALDI-TOF MS Analysis
Liang Qiao, Christophe Roussel, Jingjing Wan, Pengyuan Yang, Hubert H. Girault, and Baohong Liu
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4763-4769
CE-MS of zein proteins from conventional and transgenic maize
Guillaume L. Erny, Maria Luisa Marina, Alejandro Cifuentes
ELECTROPHORESIS (2007) 28(22): 4192-4201
Optimization of Neuropeptide Extraction from the Mouse Hypothalamus
Fa-Yun Che, Xin Zhang, Iryna Berezniuk, Myrasol Callaway, Jihyeon Lim, and Lloyd D. Fricker
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4667-4676
Porous silicon surfaces - A candidate substrate for reverse protein arrays in cancer biomarker detection
Anton Ressine, Irina Corin, Kerstin Järĺs, Ginevra Guanti, Cristiano Simone, György Marko-Varga, Thomas Laurell
ELECTROPHORESIS (2007) 28(23): 4407-4415
Fe(3)O(4)@Al(2)O(3) magnetic core-shell microspheres for rapid and highly specific capture of phosphopeptides with mass spectrometry analysis
Li Y, Liu Y, Tang J, Lin H, Yao N, Shen X, Deng C, Yang P, Zhang X.
J Chromatogr A (2007) 1172(1): 57-71
Structural Analysis of Multiprotein Complexes by Cross-linking, Mass Spectrometry, and Database Searching
Alessio Maiolica, Davide Cittaro, Dario Borsotti, Lau Sennels, ClaudioCiferri, Cataldo Tarricone, Andrea Musacchio, and Juri Rappsilber
Mol Cell Proteomics (2007) 6(12): 2200-2211
SDS-PAGE Focusing: Preparative Aspects
Zilberstein G, Korol L, Righetti PG, Bukshpan S.
Anal Chem (2007) 79(22): 8624-30
A Proteomics Strategy To Discover β-Glucosidases from Aspergillus fumigatus with Two-Dimensional Page In-Gel Activity Assay and Tandem Mass Spectrometry
Kee-Hong Kim, Kimberly M. Brown, Paul V. Harris, James A. Langston, and Joel R. Cherry
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4749-4757
Microparticles: a new tool for plasma membrane sub-cellular proteomic
Miguet L, Sanglier S, Schaeffer C, Potier N, Mauvieux L, Van Dorsselaer A.
Subcell Biochem (2007) 43: 21-34
Small-scale, semi-automated purification of eukaryotic proteins for structure determination
Frederick RO, Bergeman L, Blommel PG, Bailey LJ, McCoy JG, Song J, Meske L, Bingman CA, Riters M, Dillon NA, Kunert J, Yoon JW, Lim A, Cassidy M, Bunge J, Aceti DJ, Primm JG, Markley JL, Phillips GN Jr, Fox BG.
J Struct Funct Genomics Early Edition: published 6-Nov-2007
Use of a Mixture of n-Dodecyl--D-maltoside and Sodium Dodecyl Sulfate in Poly(dimethylsiloxane) Microchips To Suppress Adhesion and Promote Separation of Proteins
Bo Huang, Samuel Kim, Hongkai Wu, and Richard N. Zare
ANALYTICAL CHEMISTRY (2007) 79(23): 9145-9149
Optimized protein extraction for quantitative proteomics of yeasts
von der Haar T.
PLoS ONE (2007) 2(10): e1078
Comparison of ?-1-acid glycoprotein isoforms from healthy and cancer patients by capillary IEF
Izaskun Lacunza, Tibor Kremmer, José Carlos Díez-Masa, Jesús Sanz, Mercedes de Frutos
ELECTROPHORESIS (2007) 28(23): 4447-4451
Targeted Analysis of Protein Termini
Wilma Dormeyer, Shabaz Mohammed, Bas van Breukelen, Jeroen Krijgsveld, and Albert J. R. Heck
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4634-4645
Elimination of Affinity Reagent Interference for the Mass Spectrometric Detection of Low-Abundance Proteins Following Immunoprecipitation
Angela M. Martin, Ting Liu, Bert C. Lynn, and Anthony P. Sinai
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4758-4762
Use of functional highly purified human platelets for the identification of new proteins of the IPP signaling pathway
Birschmann I, Mietner S, Dittrich M, Pfrang J, Dandekar T, Walter U.
Thromb Res Early Edition: published 9-Oct-2007
Sequence-Specific Retention Calculator. A Family of Peptide Retention Time Prediction Algorithms in Reversed-Phase HPLC: Applicability to Various Chromatographic Conditions and Columns
Spicer V, Yamchuk A, Cortens J, Sousa S, Ens W, Standing KG, Wilkins JA, Krokhin OV.
Anal Chem (2007) 79(22): 8762-8
Reproducibility of Two-Dimensional Gel Electrophoresis at Different Replication Levels
Cristina-Maria Valcu and Mihai Valcu
JOURNAL OF PROTEOME RESEARCH (2007) 6(12): 4677-4683
A fully automated 2-D LC-MS method utilizing online continuous pH and RP gradients for global proteome analysis
Hu Zhou, Jie Dai, Quan-Hu Sheng, Rong-Xia Li, Chia-Hui Shieh, Andras Guttman, Rong Zeng
ELECTROPHORESIS (2007) 28(23): 4311-4319
Constitution and quantity of lysis buffer alters outcome of reverse phase protein microarrays
Mary Winters, Bhavana Dabir, Minshu Yu, Elise C. Kohn
PROTEOMICS (2007) 7(22): 4066-4068
A Novel Cysteine Cross-linking Method Reveals a Direct Association between Claudin-1 and Tetraspanin CD9
Oleg V. Kovalenko, Xiuwei H. Yang, and Martin E. Hemler
Mol Cell Proteomics (2007) 6(11): 1855-1867
Two-dimensional BAC/SDS-PAGE for membrane proteomics
Zahedi RP, Moebius J, Sickmann A.
Subcell Biochem (2007) 43: 13-20
Rapid determination of amino acid incorporation by stable isotope labeling with amino acids in cell culture (SILAC)
Frank Schmidt, Margarita Strozynski, Sandra S. Salus, Hilde Nilsen, Bernd Thiede
Rapid Communications in Mass Spectrometry (2007) 21(23): 3919-3926
Isotope-labeled Protein Standards: Toward Absolute Quantitative Proteomics
Virginie Brun, Alain Dupuis, Annie Adrait, Marlene Marcellin, Damien Thomas, Magali Court, Francois Vandenesch, and Jerome Garin
Mol Cell Proteomics (2007) 6(12): 2139-2149
Identification of intra- and intermolecular disulphide bonding in the plant mitochondrial proteome by diagonal gel electrophoresis
Alison M. Winger, Nicolas L. Taylor, Joshua L. Heazlewood, David A. Day, A. Harvey Millar
PROTEOMICS (2007) 7(22): 4158-4170
Automated injection of uncleaned samples using a ten-port switching valve and a strong cation-exchange trap column for proteome analysis
Wang F, Jiang X, Feng S, Tian R, Jiang X, Han G, Liu H, Ye M, Zou H.
J Chromatogr A (2007) 1171(1-2): 56-62
Proteomic analysis of human plasma proteins by two-dimensional gel electrophoresis and by antibody arrays following depletion of high-abundance proteins
Desrosiers RR, Beaulieu E, Buchanan M, Beliveau R.
Cell Biochem Biophys (2007) 49(3): 182-95
A Nanoporous Reactor for Efficient Proteolysis
Qiao L, Liu Y, Hudson SP, Yang P, Magner E, Liu B.
Chemistry Early Edition: published 24-Oct-2007
Comparison of two tandem mass spectrometry-based methods for analyzing the proteome of healthy human lens fibers
Zhang C, Liu P, Wang N, Li Y, Wang L.
Mol Vis (2007) 13: 1873-7.
Microfluidic enzymatic reactors for proteome research
Liu Y, Liu B, Yang P, Girault HH.
Anal Bioanal Chem Early Edition: published 23-Oct-2007
Identifying the subproteome of kinetically stable proteins via diagonal 2D SDS/PAGE
Xia K, Manning M, Hesham H, Lin Q, Bystroff C, Colon W.
Proc Natl Acad Sci U S A (2007) 104(44): 17329-34
SPINE: A method for the rapid detection and analysis of protein-protein interactions in vivo
Christina Herzberg, Lope Andrés Flórez Weidinger, Bastian Dörrbecker, Sebastian Hübner, Jörg Stülke, Fabian M. Commichau
PROTEOMICS (2007) 7(22): 4032-4035
Systems nanobiology: from quantitative single molecule biophysics to microfluidic-based single cell analysis
Martini J, Hellmich W, Greif D, Becker A, Merkle T, Ros R, Ros A, Toensing K, Anselmetti D.
Subcell Biochem (2007) 43: 301-21
Electrochemical Biochips for Protein Analysis
Warsinke A.
Adv Biochem Eng Biotechnol Early Edition: published 11-Oct-2007
Performance Characteristics of Electron Transfer Dissociation Mass Spectrometry
David M. Good, Matthew Wirtala, Graeme C. McAlister, and Joshua J. Coon
Mol Cell Proteomics (2007) 6(11): 1942-1951
Serum protein profiling in patients with inflammatory bowel diseases using selective solid-phase bulk extraction, matrix-assisted laser desorption/ionization time-of-flight mass spectrometry and chemometric data analysis
Paolo Nanni, Daniela Parisi, Giulia Roda, Monica Casale, Andrea Belluzzi, Enrico Roda, Lloyd Mayer, Aldo Roda
Rapid Communications in Mass Spectrometry (2007) 21(24): 4142-4148
Clathrate nanostructures for mass spectrometry
Northen TR, Yanes O, Northen MT, Marrinucci D, Uritboonthai W, Apon J, Golledge SL, Nordstrom A, Siuzdak G.
Nature (2007) 449(7165): 1033-6
Polymeric integrated selective enrichment target (ISET) for solid-phase-based sample preparation in MALDI-TOF MS
Ekstrom S, Wallman L, Helldin G, Nilsson J, Marko-Varga G, Laurell T.
J Mass Spectrom (2007) 42(11): 1445-1452
A workflow to increase the detection rate of proteins from unsequenced organisms in high-throughput proteomics experiments
Jonas Grossmann, Bernd Fischer, Katja Baerenfaller, Judith Owiti, Joachim M. Buhmann, Wilhelm Gruissem, Sacha Baginsky
PROTEOMICS (2007) 7(23): 4245-4254
Biophotonics applied to proteomics
Faupel M, Bonenfant D, Schindler P, Bertrand E, Mueller D, Stoeckli M, Bitsch F, Rohner T, Staab D, Van Oostrum J.
Subcell Biochem (2007) 43: 323-38
N-Glycosylation Site Occupancy in Serum Glycoproteins Using Multiple Reaction Monitoring Liquid Chromatography-Mass Spectrometry
Andreas J. Hulsmeier, Patricie Paesold-Burda, and Thierry Hennet
Mol Cell Proteomics (2007) 6(12): 2132-2138
The development of multiple reaction monitoring assays for liver-derived plasma proteins
Matthew J. McKay, Jamie Sherman, Matthew T. Laver, Mark S. Baker, Stephen J. Clarke, Mark P. Molloy
PROTEOMICS - CLINICAL APPLICATIONS (2007) 1(12): 1570-1581
Identification of novel angiotensin-converting enzyme-inhibitory peptides from ovine milk proteins by CE-MS and chromatographic techniques
José Ángel Gómez-Ruiz, Mercedes Ramos, Isidra Recio
ELECTROPHORESIS (2007) 28(22): 4202-4211
Bayesian Inference for Gene Expression and Proteomics
Ping Ma
Brief Bioinform (2007) 8(5): 376-377.
Proteomics for Biological Discovery. * Edited by Timothy D. Veenstra and John R. Yates III
Giselle M. Knudsen
Brief Bioinform (2007) 8(6): 467-468
The origins of modern proteomes
Kurland CG, Canback B, Berg OG.
Biochimie (2007) 89(12): 1454-63
Resources, standards and tools for systems biology
Christoph Wierling, Ralf Herwig, and Hans Lehrach
Brief Funct Genomic Proteomic (2007) 6(3): 240-251
Genomics and proteomics methodologies for vulnerable populations research
Kasper CE.
Annu Rev Nurs Res (2007) 25: 191-217
HUPO Plasma Proteome Project 2007 Workshop Report
Gilbert S. Omenn, Ruedi Aebersold, and Young-Ki Paik
Mol Cell Proteomics (2007) 6(12): 2252-2253