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SPS' DigestIssue 56, 7-Nov-2008 |
Improved Sequence Tag Generation Method for Peptide Identification in Tandem Mass Spectrometry
Xia Cao and Alexey I. Nesvizhskii
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4422-4434
A database of mass spectrometric assays for the yeast proteome
Picotti P, Lam H, Campbell D, Deutsch EW, Mirzaei H, Ranish J, Domon B, Aebersold R.
Nat Methods (2008) 5(11): 913-4
pICarver: A Software Tool and Strategy for Peptides Isoelectric Focusing
Ali R. Vaezzadeh, Céline Hernandez, Oscar Vadas, Jacques J. M. Deshusses, Pierre Lescuyer, Frédérique Lisacek, and Denis F. Hochstrasser
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4336-4345
Minimum Reporting Guidelines for Proteomics Released by the Proteomics Standards Initiative
Andrew R. Jones and Sandra Orchard
Mol Cell Proteomics (2008) 7(10): 2067-2068
Sequential Interval Motif Search: Unrestricted Database Surveys of Global MS/MS Data Sets for Detection of Putative Post-Translational Modifications
Jian Liu, Alexandre Erassov, Patrick Halina, Myra Canete, Nguyen Dinh Vo, Clement Chung, Gerard Cagney, Alexandr Ignatchenko, Vincent Fong, and Andrew Emili
ANALYTICAL CHEMISTRY (2008) 80(20): 7846-7854
Versatile Online−Offline Engine for Automated Acquisition of High-Resolution Tandem Mass Spectra
Craig D. Wenger, Michael T. Boyne II, Jonathan T. Ferguson, Dana E. Robinson, and Neil L. Kelleher
ANALYTICAL CHEMISTRY (2008) 80(21): 8055-8063
Tools for Interpreting Large-scale Protein Profiling in Microbiology
Hendrickson EL, Lamont RJ, Hackett M.
J Dent Res (2008) 87(11): 1004-15
PPDB, the Plant Proteomics Database at Cornell
Sun Q, Zybailov B, Majeran W, Friso G, Olinares PD, van Wijk KJ.
Nucl Acids Res Early Edition: published 2-Oct-2008
A rapid approach for phenotype-screening and database independent detection of cSNP/protein polymorphism using mass accuracy precursor alignment
Wolfgang Hoehenwarter, Joost T. van Dongen, Stefanie Wienkoop, Matthias Steinfath, Jan Hummel, Alexander Erban, Ronan Sulpice, Babette Regierer, Joachim Kopka, Peter Geigenberger, Wolfram Weckwerth
PROTEOMICS (2008) 8(20): 4214-4225
MAPU 2.0: high-accuracy proteomes mapped to genomes
Gnad F, Oroshi M, Birney E, Mann M.
Nucl Acids Res Early Edition: published 23-Oct-2008
Decision tree-driven tandem mass spectrometry for shotgun proteomics
Swaney DL, McAlister GC, Coon JJ.
Nat Methods (2008) 5(11): 959-64
A comparative study of the accuracy of several de novo sequencing software packages for datasets derived by matrix-assisted laser desorption/ionisation and electrospray
Bringans S, Kendrick TS, Lui J, Lipscombe R.
Rapid Commun Mass Spectrom (2008) 22(21): 3450-3454
Prediction of Peptidase Category Based on Functional Domain Composition
XiaoChun Xu, Dong Yu, Wei Fang, Yushao Cheng, Ziliang Qian, WenCong Lu, Yudong Cai, and Kaiyan Feng
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4521-4524
Independent component analysis of 2-D electrophoresis gels
Haleh Safavi, Nicolle Correa, Wei Xiong, Anindya Roy, Tülay Adali, Valeriy R. Korostyshevskiy, Carol C. Whisnant, Françoise Seillier-Moiseiwitsch
ELECTROPHORESIS (2008) 29(19): 4017-4026
Averagine-Scaling Analysis and Fragment Ion Mass Defect Labeling in Peptide Mass Spectrometry
Xudong Yao, Pamela Diego, Alexis A. Ramos, and Yu Shi
ANALYTICAL CHEMISTRY (2008) 80(19): 7383-7391
A specificity map for the PDZ domain family
Tonikian R, Zhang Y, Sazinsky SL, Currell B, Yeh JH, Reva B, Held HA, Appleton BA, Evangelista M, Wu Y, Xin X, Chan AC, Seshagiri S, Lasky LA, Sander C, Boone C, Bader GD, Sidhu SS.
PLoS Biol (2008) 6(9): e239
Antibodypedia, a Portal for Sharing Antibody and Antigen Validation Data
Erik Bjorling and Mathias Uhlen
Mol Cell Proteomics (2008) 7(10): 2028-2037
Subproteomic tools to increase genome annotation complexity
Candong Wei, Junping Peng, Zhaohui Xiong, Jian Yang, Jing Wang, Qi Jin
PROTEOMICS (2008) 8(20): 4209-4213
Aggregation propensity of the human proteome
Monsellier E, Ramazzotti M, Taddei N, Chiti F
PLoS Comput Biol (2008) 4(10): e1000199
Human Proteinpedia as a Resource for Clinical Proteomics
Suresh Mathivanan and Akhilesh Pandey
Mol Cell Proteomics (2008) 7(10): 2038-2047
Isotopic Peak Intensity Ratio Based Algorithm for Determination of Isotopic Clusters and Monoisotopic Masses of Polypeptides from High-Resolution Mass Spectrometric Data
Kunsoo Park, Joo Young Yoon, Sunho Lee, Eunok Paek, Heejin Park, Hee-Jung Jung, and Sang-Won Lee
ANALYTICAL CHEMISTRY (2008) 80(19): 7294-7303
HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot
Lima T, Auchincloss AH, Coudert E, Keller G, Michoud K, Rivoire C, Bulliard V, de Castro E, Lachaize C, Baratin D, Phan I, Bougueleret L, Bairoch A
Nucl Acids Res Early Edition: published 2008 Oct 11
FACTA: a text search engine for finding associated biomedical concepts
Yoshimasa Tsuruoka, Jun'ichi Tsujii, and Sophia Ananiadou
Bioinformatics (2008) 24(21): 2559-2560
Phosphoproteomics, oncogenic signaling and cancer research
Poh-Kuan Chong, Huiyin Lee, Jacklyn Wai-Fun Kong, Marie Chiew-Shia Loh, Chee-Hong Wong, Yoon-Pin Lim
PROTEOMICS (2008) 8(21): 4370-4382
PhytAMP: a database dedicated to antimicrobial plant peptides
Hammami R, Ben Hamida J, Vergoten G, Fliss I.
Nucl Acids Res Early Edition: published 4-Oct-2008
A proteome catalog of Drosophila melanogaster: an essential resource for targeted quantitative proteomics
Ahrens CH, Brunner E, Hafen E, Aebersold R, Basler K.
Fly (Austin) (2007) 1(3): 182-6
Simplified validation of borderline hits of database searches
Henrik Thomas, Andrej Shevchenko
PROTEOMICS (2008) 8(20): 4173-4177
A Fast SEQUEST Cross Correlation Algorithm
Jimmy K. Eng, Bernd Fischer, Jonas Grossmann, and Michael J. MacCoss
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4598-4602
A Genecentric Human Protein Atlas for Expression Profiles Based on Antibodies
Lisa Berglund, Erik Bjorling, Per Oksvold, Linn Fagerberg, Anna Asplund, Cristina Al-Khalili Szigyarto, Anja Persson, Jenny Ottosson, Henrik Wernerus, Peter Nilsson, Emma Lundberg, Asa Sivertsson, Sanjay Navani, Kenneth Wester, Caroline Kampf, Sophia Hober, Fredrik Ponten, and Mathias Uhlen
Mol Cell Proteomics (2008) 7(10): 2019-2027
MINT and IntAct contribute to the Second BioCreative challenge: serving the text-mining community with high quality molecular interaction data
Chatr-aryamontri A, Kerrien S, Khadake J, Orchard S, Ceol A, Licata L, Castagnoli L, Costa S, Derow C, Huntley R, Aranda B, Leroy C, Thorneycroft D, Apweiler R, Cesareni G, Hermjakob H
Genome Biol (2008) 9 Suppl 2: S5
The Universal Protein Resource (UniProt) 2009
The UniProt Consortium.
Nucl Acids Res Early Edition: published 4-Oct-2008
The Multinational Arabidopsis Steering Subcommittee for Proteomics Assembles the Largest Proteome Database Resource for Plant Systems Biology
Wolfram Weckwerth, Sacha Baginsky, Klaas van Wijk, Joshua L. Heazlewood, and Harvey Millar
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4209-4210
Human Proteinpedia: a unified discovery resource for proteomics research
Kandasamy K, Keerthikumar S, Goel R, Mathivanan S, Patankar N, Shafreen B, Renuse S, Pawar H, Ramachandra YL, Acharya PK, Ranganathan P, Chaerkady R, Prasad TS, Pandey A.
Nucl Acids Res Early Edition: published 23-Oct-2008
ProteoWizard: open source software for rapid proteomics tools development
Darren Kessner, Matt Chambers, Robert Burke, David Agus, and Parag Mallick
Bioinformatics (2008) 24(21): 2534-2536
In silico analysis of protein neoplastic biomarkers for cervix and uterine cancer
RodrÃguez-Pérez MA, Medina-Aunon A, Encarnación-Guevara SM, Bernal-Silvia S, Barrera-Saldaña H, Albar-RamÃrez JP.
Clin Transl Oncol (2008) 10(10): 604-17
Proteomics and phosphoproteomics for the mapping of cellular signalling networks
Christian Preisinger, Alex von Kriegsheim, David Matallanas, Walter Kolch
PROTEOMICS (2008) 8(21): 4402-4415
Proteomic analysis of androgen-independent growth in low and high passage human LNCaP prostatic adenocarcinoma cells
Youm YH, Kim S, Bahk YY, Yoo TK.
BMB Rep (2008) 41(10): 722-7
Proteomic identification and functional validation of activins and BMP-11 as candidate novel muscle mass regulators
Souza TA, Chen X, Guo Y, Sava P, Zhang J, Hill JJ, Yaworsky PJ, Qiu Y
Mol Endocrinol Early Edition: published 2008 Oct 16
Proteomic Analysis Reveals Suppression of Bark Chitinases and Proteinase Inhibitors in Citrus Plants Affected by the Citrus Sudden Death Disease
Cantú MD, Mariano AG, Palma MS, Carrilho E, Wulff NA.
Phytopathology (2008) 98(10): 1084-1092
Systemic analysis of TGF? proteomics revealed involvement of Plag1/CNK1/RASSF1A/Src network in TGF?1-dependent activation of Erk1/2 and cell proliferation
Nimesh Bhaskaran, Serhiy Souchelnytskyi
PROTEOMICS (2008) 8(21): 4507-4520
Differential Mass Spectrometry of Rat Plasma Reveals Proteins That Are Responsive to 17β-Estradiol and a Selective Estrogen Receptor Modulator PPT
Xuemei Zhao, Ekaterina G. Deyanova, Laura S. Lubbers, Pete Zafian, Jenny J. Li, Andy Liaw, Qinghua Song, Yi Du, Robert E. Settlage, Gerry J. Hickey, Nathan A. Yates, and Ronald C. Hendrickson
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4373-4383
Tubulin proteomics: Towards breaking the code
Verdier-Pinard P, Pasquier E, Xiao H, Burd B, Villard C, Lafitte D, Miller LM, Angeletti RH, Horwitz SB, Braguer D.
Anal Biochem Early Edition: published 18-Sep-2008
Proteome-determined Mycobacterium avium subspecies paratuberculosis-specific proteins: immunogenicity in ovine paratuberculosis
Hughes V, Bannantine JP, Denham S, Smith S, Garcia-Sanchez A, Sales J, Paustian ML, McLean K, Stevenson K.
Clin Vaccine Immunol Early Edition: published 8-Oct-2008
Membrane proteomics of phagosomes suggests a connection to autophagy
Shui W, Sheu L, Liu J, Smart B, Petzold CJ, Hsieh TY, Pitcher A, Keasling JD, Bertozzi CR.
Proc Natl Acad Sci U S A (2008) 105(44): 16952-7
Comparative proteomic analysis of trophozoites versus cysts of Giardia lamblia
Kim J, Bae SS, Sung MH, Lee KH, Park SJ
Parasitol Res Early Edition: published 2008 Oct 14
DIFFERENTIAL EXPRESSION IN PHANEROCHAETE CHRYSOSPORIUM OF MEMBRANE-ASSOCIATED PROTEINS RELEVANT TO LIGNIN DEGRADATION
Shary S, Kapich AN, Panisko EA, Magnuson JK, Cullen D, Hammel KE
Appl Environ Microbiol Early Edition: published 2008 Oct 10
Quantitative proteomic analysis of primary neurons reveals diverse changes in synaptic protein content in fmr1 knockout mice
Liao L, Park SK, Xu T, Vanderklish P, Yates JR 3rd.
Proc Natl Acad Sci U S A (2008) 105(40): 15281-6
Metabolism of a sulfur-containing heteroarotionoid antitumor agent, SHetA2, using liquid chromatography/tandem mass spectrometry
Zhongfa Liu, Yilong Zhang, Yousheng Frank Hua, Joseph M. Covey, Doris M. Benbrook, Kenneth K. Chan
Rapid Communications in Mass Spectrometry (2008) 22(21): 3371-3381
Intrinsic Disorder in Nuclear Hormone Receptors
Matthew D. Krasowski, Erica J. Reschly, and Sean Ekins
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4359-4372
Comparative analysis of proteome differential regulation during cell dedifferentiation in Arabidopsis
Brahmananda Reddy Chitteti, Feng Tan, Hana Mujahid, Bryce G. Magee, Susan M. Bridges, Zhaohua Peng
PROTEOMICS (2008) 8(20): 4303-4316
Comparative proteomics profile of osteoblasts cultured on dissimilar hydroxyapatite biomaterials: An iTRAQ-coupled 2-D LC-MS/MS analysis
Jinling Xu, Khiam Aik Khor, Jianjun Sui, Jianhua Zhang, Tuan Lin Tan, Wei Ning Chen
PROTEOMICS (2008) 8(20): 4249-4258
Proteomics can help to gain insights into metabolic disorders according to body reserve availability
Bertile F, Raclot T
Curr Med Chem (2008) 15(25): 2545-58
In vivo proteome dynamics during early bovine myogenesis
Thibault Chaze, Bruno Meunier, Christophe Chambon, Catherine Jurie, Brigitte Picard
PROTEOMICS (2008) 8(20): 4236-4248
Proteomic characterization of mouse cartilage degradation in vitro
Wilson R, Belluoccio D, Little CB, Fosang AJ, Bateman JF.
Arthritis Rheum (2008) 58(10): 3120-3131
Effect of minor milk proteins in chymosin separated whey and casein fractions on cheese yield as determined by proteomics and multivariate data analysis
Wedholm A, Møller HS, Stensballe A, Lindmark-Månsson H, Karlsson AH, Andersson R, Andrén A, Larsen LB.
J Dairy Sci (2008) 91(10): 3787-97
LC-MS/MS Analysis of Differential Centrifugation Fractions from Native Inner Medullary Collecting Duct of Rat
Sachs AN, Pisitkun T, Hoffert JD, Yu MJ, Knepper MA
Am J Physiol Renal Physiol Early Edition: published 2008 Oct 15
Proteomic analysis of Latrodectus tredecimguttatus venom for uncovering potential latrodectism-related proteins
Duan Z, Yan X, Cao R, Liu Z, Wang X, Liang S.
J Biochem Mol Toxicol (2008) 22(5): 328-336
Cell physiology and protein secretion of Bacillus licheniformis compared to Bacillus subtilis
Voigt B, Antelmann H, Albrecht D, Ehrenreich A, Maurer KH, Evers S, Gottschalk G, van Dijl JM, Schweder T, Hecker M.
J Mol Microbiol Biotechnol (2009) 16(1-2): 53-68
A comparative proteomic analysis during urodele lens regeneration
Roddy M, Fox TP, McFadden JP, Nakamura K, Rio-Tsonis KD, Tsonis PA
Biochem Biophys Res Commun Early Edition: published 2008 Oct 9
PhytAMP: a database dedicated to antimicrobial plant peptides
Hammami R, Ben Hamida J, Vergoten G, Fliss I.
Nucl Acids Res Early Edition: published 4-Oct-2008
Impact of cyclopentenone-oxylipins on the proteome of Arabidopsis thaliana
Dueckershoff K, Mueller S, Mueller MJ, Reinders J
Biochim Biophys Acta Early Edition: published 2008 Sep 20
Proteomic profiling of Plasmodium sporozoite maturation identifies new proteins essential for parasite development and infectivity
Lasonder E, Janse CJ, van Gemert GJ, Mair GR, Vermunt AM, Douradinha BG, van Noort V, Huynen MA, Luty AJ, Kroeze H, Khan SM, Sauerwein RW, Waters AP, Mann M, Stunnenberg HG.
PLoS Pathog (2008) 4(10): e1000195
Changes in protein expression during honey bee larval development
Chan QW, Foster LJ.
Genome Biol (2008) 9(10): R156
d-Dopachrome tautomerase is a candidate for key proteins to protect the rat liver damaged by carbon tetrachloride
Hiyoshi M, Konishi H, Uemura H, Matsuzaki H, Tsukamoto H, Sugimoto R, Takeda H, Dakeshita S, Kitayama A, Takami H, Sawachika F, Kido H, Arisawa K.
Toxicology Early Edition: published 27-Sep-2008
Modulation of Retinoic Acid Receptor Alpha Activity by Lysine Methylation in the DNA Binding Domain
M. D. Mostaqul Huq, Sung Gil Ha, and Li-Na Wei
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4538-4545
Differential protein expression in human corneal endothelial cells cultured from young and older donors
Zhu C, Rawe I, Joyce NC
Mol Vis (2008) 14: 1805-14
Proteomic analysis of differentially expressed proteins in bovine milk during experimentally induced Escherichia coli mastitis
Boehmer JL, Bannerman DD, Shefcheck K, Ward JL.
J Dairy Sci (2008) 91(11): 4206-18
Effects of Sucrose on the Extracellular Matrix of Plaque-Like Biofilm Formed in vivo, Studied by Proteomic Analysis
Paes Leme AF, Bellato CM, Bedi G, Del Bel Cury AA, Koo H, Cury JA.
Caries Res (2008) 42(6): 435-443
Quantitative proteomics and phosphoproteomics reveal novel insights into complexity and dynamics of the EGFR signaling network
Sandra Morandell, Taras Stasyk, Sergej Skvortsov, Stefan Ascher, Lukas A. Huber
PROTEOMICS (2008) 8(21): 4383-4401
Novel proteins, putative membrane transporters and an integrated metabolic network are revealed by quantitative proteomic analysis of Arabidopsis cell culture peroxisomes
Eubel H, Meyer EH, Taylor NL, Bussell JD, O'Toole N, Heazlewood JL, Castleden I, Small ID, Smith SM, Millar AH.
Plant Physiol Early Edition: published 17-Oct-2008
Enhanced Detection of CNS Cell Secretome in Plasma Protein-Depleted Cerebrospinal Fluid
Eric Thouvenot, Serge Urbach, Christelle Dantec, Joël Poncet, Martial Séveno, Edith Demettre, Patrick Jouin, Jacques Touchon, Joël Bockaert, and Philippe Marin
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4409-4421
Heat induced changes in protein expression profiles of Norway spruce (Picea abies) ecotypes from different elevations
Cristina-Maria Valcu, Céline Lalanne, Christophe Plomion, Katja Schlink
PROTEOMICS (2008) 8(20): 4287-4302
Matrix-assisted laser desorption/ionization quadrupole ion trap time-of-flight (MALDI-QIT-TOF)-based imaging mass spectrometry reveals a layered distribution of phospholipid molecular species in the mouse retina
Takahiro Hayasaka, Naoko Goto-Inoue, Yuki Sugiura, Nobuhiro Zaima, Hiroki Nakanishi, Kentaro Ohishi, Setsuko Nakanishi, Takayuki Naito, Ryo Taguchi, Mitsutoshi Setou
Rapid Communications in Mass Spectrometry (2008) 22(21): 3415-3426
Limited variation in the major urinary proteins of laboratory mice
Cheetham SA, Smith AL, Armstrong SD, Beynon RJ, Hurst JL.
Physiol Behav Early Edition: published 17-Oct-2008
Proteome-based comparative analyses of growth stages reveal new cell-cycle dependent functions in the predatory bacterium Bdellovibrio bacteriovorus
Dori-Bachash M, Dassa B, Pietrokovski S, Jurkevitch E.
Appl Environ Microbiol Early Edition: published 3-Oct-2008
Comparative Proteomics Reveals Evidence for Evolutionary Diversification of Rodent Seminal Fluid and Its Functional Significance in Sperm Competition
Ramm SA, McDonald L, Hurst JL, Beynon RJ, Stockley P.
Mol Biol Evol Early Edition: published 17-Oct-2008
Comparative Proteomical Analysis of Zygotic Embryo and Endosperm from Coffea arabica Seeds
Koshino LL, Gomes CP, Silva LP, Eira MT, Bloch Jr C, Franco OL, Mehta A.
J Agric Food Chem Early Edition: published 30-Oct-2008
iTRAQ analysis of Singapore grouper iridovirus infection in a grouper embryonic cell line
Chen LM, Tran BN, Lin Q, Lim TK, Wang F, Hew CL.
J Gen Virol (2008) 89(Pt 11): 2869-76
Human Embryonic and Mesenchymal Stem Cells Express Different Nuclear Proteomes
Jaishankar A, Barthelery M, Freeman WM, Salli U, Ritty T, Vrana K.
Stem Cells Dev Early Edition: published 26-Sep-2008
Genomics and proteomics of immune modulatory effects of a butanol fraction of echinacea purpurea in human dendritic cells
Wang CY, Staniforth V, Chiao MT, Hou CC, Wu HM, Yeh KC, Chen CH, Hwang PI, Wen TN, Shyur LF, Yang NS
BMC Genomics (2008) 9: 479
Proteomic analysis of secreted membrane vesicles of archaeal Sulfolobus species reveals the presence of endosome sorting complex components
Ellen AF, Albers SV, Huibers W, Pitcher A, Hobel CF, Schwarz H, Folea M, Schouten S, Boekema EJ, Poolman B, Driessen AJ.
Extremophiles Early Edition: published 31-Oct-2008
Proteomic and transcriptomic analysis of Aspergillus fumigatus on exposure to amphotericin B
Gautam P, Shankar J, Madan T, Sirdeshmukh R, Sundaram CS, Gade WN, Basir SF, Sarma PU.
Antimicrob Agents Chemother Early Edition: published 6-Oct-2008
Building proteomic pathways using Drosophila ventral furrow formation as a model
Puri M, Goyal A, Senutovich N, Dowd SR, Minden JS.
Mol Biosyst (2008) 4(11): 1126-35
Comprehensive Profiling of Histone Modifications Using a Label-Free Approach and Its Applications in Determining Structure−Function Relationships
Paul Drogaris, Hugo Wurtele, Hiroshi Masumoto, Alain Verreault, and Pierre Thibault
ANALYTICAL CHEMISTRY (2008) 80(17): 6698-6707
Age-Related Changes in the Expression and Oxidation of Bronchoalveolar Lavage Proteins in the Rat
Umstead TM, Freeman WM, Chinchilli VM, Phelps DS.
Am J Physiol Lung Cell Mol Physiol Early Edition: published 17-Oct-2008
Determination of protein and RNA expression levels of common housekeeping genes in a mouse model of neurodegeneration
Ana C. Calvo, María Moreno-Igoa, Raquel Manzano, Laura Ordovás, Gema Yagüe, Sara Oliván, María J. Muñoz, Pilar Zaragoza, Rosario Osta
PROTEOMICS (2008) 8(20): 4338-4343
Comparative proteome analysis of robust Saccharomyces cerevisiae insights into industrial continuous and batch fermentation
Cheng JS, Qiao B, Yuan YJ
Appl Microbiol Biotechnol Early Edition: published 2008 Oct 16
Enhanced structural and functional genome elucidation of the arsenite-oxidizing strain Herminiimonas arsenicoxydans by proteomics data
Weiss S, Carapito C, Cleiss J, Koechler S, Turlin E, Coppee JY, Heymann M, Kugler V, Stauffert M, Cruveiller S, Medigue C, Van Dorsselaer A, Bertin PN, Arsene-Ploetze F
Biochimie Early Edition: published 2008 Sep 25
Bovine Viral Diarrhea Virus infection affects the expression of proteins related to professional antigen presentation in bovine monocytes
Lee SR, Nanduri B, Pharr GT, Stokes JV, Pinchuk LM.
Biochim Biophys Acta Early Edition: published 30-Sep-2008
Stage- and Gender-Specific Proteomic Analysis of Brugia malayi Excretory-Secretory Products
Moreno Y, Geary TG.
PLoS Negl Trop Dis (2008) 2(10): e326
Sialome Individuality Between Aedes aegypti Colonies
Almeras L, Orlandi-Pradines E, Fontaine A, Villard C, Boucomont E, Senneville LD, Baragatti M, Pascual A, Pradines B, Corre-Catelin N, Pages F, Reiter P, Rogier C, Fusai T
Vector Borne Zoonotic Dis Early Edition: published 2008 Oct 10
Protein signaling pathways in differentiation of neural stem cells
Helena Skalnikova, Petr Vodicka, Steven Pelech, Jan Motlik, Suresh Jivan Gadher, Hana Kovarova
PROTEOMICS (2008) 8(21): 4547-4559
Symposium: innovative techniques in human embryo viability assessment. Can proteomics help to shape the future of human assisted conception?
Katz-Jaffe MG, Gardner DK
Reprod Biomed Online (2008) 17(4): 497-501
A novel method for isolation of membrane proteins: A baculovirus surface display system
Yaozhou Zhang, Zhengbing Lv, Jian Chen, Qin Chen, Yanping Quan, Lingyin Kong, Haihua Zhang, Si Li, Qingliang Zheng, Jianqing Chen, Zuoming Nie, Jiang Wang, Yongfeng Jin, Xiangfu Wu
PROTEOMICS (2008) 8(20): 4178-4185
Serological proteome analysis of Staphylococcus aureus isolated from sub-clinical mastitis
Tedeschi G, Taverna F, Negri A, Piccinini R, Nonnis S, Ronchi S, Zecconi A.
Vet Microbiol Early Edition: published 27-Aug-2008
Proteomic analysis of circulating monocytes in Chinese premenopausal females with extremely discordant bone mineral density
Fei-Yan Deng, Yao-Zhong Liu, Li-Ming Li, Chen Jiang, Shan Wu, Yuan Chen, Hui Jiang, Fang Yang, Ji-Xian Xiong, Peng Xiao, Su-Mei Xiao, Li-Jun Tan, Xiao Sun, Xue-Zhen Zhu, Man-Yuan Liu, Shu-Feng Lei, Xiang-Ding Chen, Jing-Yun Xie, Gary G. Xiao, Song-Ping Liang, Hong-Wen Deng
PROTEOMICS (2008) 8(20): 4259-4272
Signal transduction pathways of mantle cell lymphoma: A phosphoproteome-based study
Daniela Cecconi, Alberto Zamò, Elena Bianchi, Alice Parisi, Stefano Barbi, Alberto Milli, Sara Rinalducci, Andreas Rosenwald, Elena Hartmann, Lello Zolla, Marco Chilosi
PROTEOMICS (2008) 8(21): 4495-4506
Identification of Maize Kernel Endosperm Proteins Associated with Resistance to Aflatoxin Contamination by Aspergillus flavus
Chen ZY, Brown RL, Damann KE, Cleveland TE.
Phytopathology (2007) 97(9): 1094-1103
Chemokine receptor CCR2 undergoes transportin1-dependent nuclear translocation
Nicolas Favre, Montserrat Camps, Christian Arod, Christian Chabert, Christian Rommel, Christian Pasquali
PROTEOMICS (2008) 8(21): 4560-4576
Proteomic analysis of the rat vestibular nucleus complex following unilateral labyrinthectomy
Ban JH, Chang J, Im GJ, Jung HH.
Acta Otolaryngol Early Edition: published 21-Oct-2008
Identification of Unique or Elevated Levels of Kernel Proteins in Aflatoxin-Resistant Maize Genotypes Through Proteome Analysis
Chen ZY, Brown RL, Damann KE, Cleveland TE.
Phytopathology (2002) 92(10): 1084-1094
Oviduct-specific glycoprotein and heparin modulate sperm-zona pellucida interaction during fertilization and contribute to the control of polyspermy
Coy P, Cánovas S, Mondéjar I, Saavedra MD, Romar R, Grullón L, Matás C, Avilés M.
Proc Natl Acad Sci U S A (2008) 105(41): 15809-14
Analysis of the Trypanosome Flagellar Proteome Using a Combined Electron Transfer/Collisionally Activated Dissociation Strategy
Hart SR, Lau KW, Hao Z, Broadhead R, Portman N, Hühmer A, Gull K, McKean PG, Hubbard SJ, Gaskell SJ.
J Am Soc Mass Spectrom Early Edition: published 3-Sep-2008
Tissue-Specific Expression and Post-Translational Modification of Histone H3 Variants
Benjamin A. Garcia, C. Eric Thomas, Neil L. Kelleher, and Craig A. Mizzen
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4225-4236
Protein Dynamics in Iron-Starved Mycobacterium tuberculosis Revealed by Turnover and Abundance Measurement Using Hybrid-Linear Ion Trap-Fourier Transform Mass Spectrometry
Prahlad K. Rao, G. Marcela Rodriguez, Issar Smith, and Qingbo Li
ANALYTICAL CHEMISTRY (2008) 80(18): 6860-6869
Phosphoproteome and transcriptome analyses of ErbB ligand-stimulated MCF-7 cells
Nagashima T, Oyama M, Kozuka-Hata H, Yumoto N, Sakaki Y, Hatakeyama M.
Cancer Genomics Proteomics (2008) 5(3-4): 161-8
Proteomic analysis of alterations in the secretome of Arabidopsis thaliana suspension cells subjected to nutritional phosphate deficiency
Hue T. Tran, William C. Plaxton
PROTEOMICS (2008) 8(20): 4317-4326
Comparative analysis of young panicle proteome in thermo-sensitive genic male-sterile rice Zhu-1S under sterile and fertile conditions
Xiao X, Yang Y, Yang Y, Lin J, Tang D, Liu X
Biotechnol Lett Early Edition: published 2008 Oct 16
Detection and Identification of Coxiella burnetii Based on the Mass Spectrometric Analyses of the Extracted Proteins
Lenka Hernychova, Rudolf Toman, Fedor Ciampor, Martin Hubalek, Jana Vackova, Ales Macela, and Ludovit Skultety
ANALYTICAL CHEMISTRY (2008) 80(18): 7097-7104
beta-Defensin antibiotic peptides in the innate immunity of the buffalo: in vivo and in vitro studies
Das H, Swamy N, Sahoo G, Ahmed SU, More T.
Altern Lab Anim (2008) 36(4): 429-40
The proteome profile of two cell lines and their xenografts isolated from a patient with clear cell sarcoma (soft tissue melanoma)
Dimas K, Tsimplouli C, Anagnostopoulos AK, Mahaira L, Iliopoulou E, Perez S, Vougas K, Tsangaris GT.
Cancer Genomics Proteomics (2008) 5(3-4): 175-237
Rapid analysis of proteomic biomarkers expressed in human endometrial stromal cells during decidualization
Oh KJ, Choi HJ, Yoon MS, Hwang JH, Chang SY, Kim YS, Han JS.
Arch Pharm Res (2008) 31(10): 1247-55
Assessing Immunogenicity in the Presence of Excess Protein Therapeutic Using Immunoprecipitation and Quantitative Mass Spectrometry
Hendrik Neubert, Christopher Grace, Klaus Rumpel, and Ian James
ANALYTICAL CHEMISTRY (2008) 80(18): 6907-6914
Breast cancer proteomics reveals correlation between Estrogen Receptor status and differential phosphorylation of PGRMC1
Neubauer H, Clare SE, Wozny W, Schwall GP, Poznanovic S, Stegmann W, Vogel U, Sotlar K, Wallwiener D, Kurek R, Fehm T, Cahill MA
Breast Cancer Res (2008) 10(5): R85
Staphylococcus aureus elicits marked alterations in the airway proteome during early pneumonia
Ventura CL, Higdon R, Hohmann L, Martin D, Kolker E, Liggitt HD, Skerrett SJ, Rubens CE
Infect Immun Early Edition: published 2008 Oct 13
Laser Capture Microdissection and Protein Microarray Analysis of Human Non-small Cell Lung Cancer: Differential Epidermal Growth Factor Receptor (EGPR) Phosphorylation Events Associated with Mutated EGFR Compared with Wild Type
Amy J. VanMeter, Adrianna S. Rodriguez, Elise D. Bowman, Jin Jen, Curtis C. Harris, Jianghong Deng, Valerie S. Calvert, Alessandra Silvestri, Claudia Fredolini, Vikas Chandhoke, Emanuel F. Petricoin, III, Lance A. Liotta, and Virginia Espina
Mol Cell Proteomics (2008) 7(10): 1902-1924
Intracellular signaling pathways regulating radioresistance of human prostate carcinoma cells
Ira Skvortsova, Sergej Skvortsov, Taras Stasyk, Uma Raju, Bela-Andre Popper, Bernhard Schiestl, Elisabeth von Guggenberg, Andreas Neher, Guenther K. Bonn, Lukas A. Huber, Peter Lukas
PROTEOMICS (2008) 8(21): 4521-4533
Quantitative Analysis of global Ubiquitination in HeLa Cells by Mass Spectrometry
David Meierhofer, Xiaorong Wang, Lan Huang, and Peter Kaiser
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4566-4576
Fetal inflammatory response in women with proteomic biomarkers characteristic of intra-amniotic inflammation and preterm birth
Buhimschi CS, Dulay AT, Abdel-Razeq S, Zhao G, Lee S, Hodgson EJ, Bhandari V, Buhimschi IA.
BJOG Early Edition: published 8-Oct-2008
Immunoproteomics to identify tumor-associated antigens eliciting humoral response
Mou Z, He Y, Wu Y.
Cancer Lett Early Edition: published 16-Oct-2008
Proteomic analysis of scleroderma lesional skin reveals activated wound healing phenotype of epidermal cell layer
Aden N, Shiwen X, Aden D, Black C, Nuttall A, Denton CP, Leask A, Abraham D, Stratton R.
Rheumatology (Oxford) Early Edition: published 1-Oct-2008
Clinical proteomics in cancer research-promises and limitations of current two-dimensional gel electrophoresis
Iwadate Y
Curr Med Chem (2008) 15(23): 2393-400
Proteomic Contributions to Personalized Cancer Care
John M. Koomen, Eric B. Haura, Gerold Bepler, Rebecca Sutphen, Elizabeth R. Remily-Wood, Kaaron Benson, Mohamad Hussein, Lori A. Hazlehurst, Timothy J. Yeatman, Lynne T. Hildreth, Thomas A. Sellers, Paul B. Jacobsen, David A. Fenstermacher, and William S. Dalton
Mol Cell Proteomics (2008) 7(10): 1780-1794
In silico analysis of protein neoplastic biomarkers for cervix and uterine cancer
RodrÃguez-Pérez MA, Medina-Aunon A, Encarnación-Guevara SM, Bernal-Silvia S, Barrera-Saldaña H, Albar-RamÃrez JP.
Clin Transl Oncol (2008) 10(10): 604-17
Use of an Immunoaffinity-Mass Spectrometry-based Approach for the Quantification of Protein Biomarkers from Serum Samples of Lung Cancer Patients
Gordon R. Nicol, Mark Han, Jun Kim, Charles E. Birse, Erin Brand, Anh Nguyen, Mehdi Mesri, William FitzHugh, Patrick Kaminker, Paul A. Moore, Steven M. Ruben, and Tao He
Mol Cell Proteomics (2008) 7(10): 1974-1982
A Quantitative Proteomic Approach for Identification of Potential Biomarkers in Hepatocellular Carcinoma
Raghothama Chaerkady, H. C. Harsha, Anuradha Nalli, Marjan Gucek, Perumal Vivekanandan, Javed Akhtar, Robert N. Cole, Jessica Simmers, Richard D. Schulick, Sujay Singh, Michael Torbenson, Akhilesh Pandey, and Paul J. Thuluvath
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4289-4298
Multiplex Analysis of Urinary Cytokine Levels in Rat Model of Cyclophosphamide-induced Cystitis
Smaldone MC, Vodovotz Y, Tyagi V, Barclay D, Philips BJ, Yoshimura N, Chancellor MB, Tyagi P
Urology Early Edition: published 2008 Oct 8
Identification of Differentially Expressed Proteins in the Cervical Mucosa of HIV-1-Resistant Sex Workers
Adam Burgener, Julie Boutilier, Charles Wachihi, Joshua Kimani, Michael Carpenter, Garrett Westmacott, Keding Cheng, Terry B. Ball, and Francis Plummer
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4446-4454
Influence of Nanometric Holes on the Sensitivity of a Waveguide-Mode Sensor: Label-Free Nanosensor for the Analysis of RNA Aptamer−Ligand Interactions
Subash C. B. Gopinath, Koichi Awazu, Makoto Fujimaki, Katsuaki Sugimoto, Yoshimichi Ohki, Tetsuro Komatsubara, Junji Tominaga, Kailash C. Gupta, and Penmetcha K. R. Kumar
ANALYTICAL CHEMISTRY (2008) 80(17): 6602-6609
Antitumor activity and molecular effects of the novel heat shock protein 90 inhibitor, IPI-504, in pancreatic cancer
Song D, Chaerkady R, Tan AC, Garcia-Garcia E, Nalli A, Suarez-Gauthier A, Lopez-Rios F, Zhang XF, Solomon A, Tong J, Read M, Fritz C, Jimeno A, Pandey A, Hidalgo M
Mol Cancer Ther (2008) 7(10): 3275-84
HIV-specific IFN{gamma}-ELISPOT Responses targeting specific regions of the proteome during Primary Subtype C Infection are poor Predictors of the Course of Viraemia and Set Point
Gray CM, Mlotshwa M, Riou C, Mathebula T, de Assis Rosa D, Mashishi T, Seoighe C, Ngandu N, van Loggerenberg F, Morris L, Mlisana K, Williamson C, Karim SA.
J Virol Early Edition: published 22-Oct-2008
The discovery and early validation of novel plasma biomarkers in mild-to-moderate Alzheimer's disease patients responding to treatment with rosiglitazone
Akuffo EL, Davis JB, Fox SM, Gloger IS, Hosford D, Kinsey EE, Jones NA, Nock CM, Roses AD, Saunders AM, Mark Skehel J, Smith MA, Cutler P.
Biomarkers (2008) 13(6): 618-36
Proteomic Analysis of Human Cerebral Endothelial Cells Activated by Glutamate/MK-801: Significance in Ischemic Stroke Injury
Minagar A, Steven Alexander J, Kelley RE, Harper M, Jennings MH.
J Mol Neurosci Early Edition: published 9-Oct-2008
Different proteomic protein patterns in saliva of Sjögren's syndrome patients
Fleissig Y, Deutsch O, Reichenberg E, Redlich M, Zaks B, Palmon A, Aframian D.
Oral Dis Early Edition: published 9-Oct-2008
Identification of Diagnostic Biomarkers for Infection in Premature Neonates
Stephen F. Kingsmore, Neil Kennedy, Henry L. Halliday, Jennifer C. Van Velkinburgh, Shengiang Zhong, Vanessa Gabriel, Judith Grant, William D. Beavis, Velizar T. Tchernev, Lorah Perlee, Serguei Lejnine, Brian Grimwade, Martin Sorette, and J. David M. Edgar
Mol Cell Proteomics (2008) 7(10): 1863-1875
Cerebrospinal fluid-optimized two-dimensional difference gel electrophoresis (2-D DIGE) facilitates the differential diagnosis of Creutzfeldt-Jakob disease
Peter Brechlin, Olaf Jahn, Petra Steinacker, Lukas Cepek, Hartmut Kratzin, Stefan Lehnert, Sarah Jesse, Brit Mollenhauer, Hans A. Kretzschmar, Jens Wiltfang, Markus Otto
PROTEOMICS (2008) 8(20): 4357-4366
Proteomic identification of non-Gal antibody targets after pig-to-primate cardiac xenotransplantation
Byrne GW, Stalboerger PG, Davila E, Heppelmann CJ, Gazi MH, McGregor HC, LaBreche PT, Davies WR, Rao VP, Oi K, Tazelaar HD, Logan JS, McGregor CG.
Xenotransplantation (2008) 15(4): 268-76
Membrane Glycoproteins Associated with Breast Tumor Cell Progression Identified by a Lectin Affinity Approach
Yanfei Wang, Xiaoping Ao, Huy Vuong, Meghana Konanur, Fred R. Miller, Steve Goodison, and David M. Lubman
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4313-4325
Proteomic profiling reveals the prognostic value of adenomatous polyposis coli-end-binding protein 1 in hepatocellular carcinoma
Orimo T, Ojima H, Hiraoka N, Saito S, Kosuge T, Kakisaka T, Yokoo H, Nakanishi K, Kamiyama T, Todo S, Hirohashi S, Kondo T.
Hepatology Early Edition: published 28-Jul-2008
Comparative proteomics analysis of human gastric cancer
Li W, Li JF, Qu Y, Chen XH, Qin JM, Gu QL, Yan M, Zhu ZG, Liu BY.
World J Gastroenterol (2008) 14(37): 5657-64
Identification of F-box/LLR-repeated protein 17 as potential useful biomarker for breast cancer therapy
Xiao GG, Zhou BS, Somlo G, Portnow J, Juhasz A, Un F, Chew H, Gandara D, Yen Y.
Cancer Genomics Proteomics (2008) 5(3-4): 151-60
Apolipoprotein A-IV, a Putative Satiety/Antiatherogenic Factor, Rises After Gastric Bypass
Culnan DM, Cooney RN, Stanley B, Lynch CJ.
Obesity (Silver Spring) Early Edition: published 23-Oct-2008
Comparative proteomic analysis of human placenta derived from assisted reproductive technology
Yu Zhang, Yan-Ling Zhang, Chun Feng, Yan-Ting Wu, Ai-Xia Liu, Jian-Zhong Sheng, Jie Cai, He-Feng Huang
PROTEOMICS (2008) 8(20): 4344-4356
Multiplexed Immunoassay: Quantitation and Profiling of Serum Biomarkers Using Magnetic Nanoprobes and MALDI-TOF MS
Kai-Yi Wang, Szu-An Chuang, Po-Chiao Lin, Li-Shing Huang, Shu-Hua Chen, Saib Ouarda, Wen-Harn Pan, Ping-Ying Lee, Chun-Cheng Lin, and Yu-Ju Chen
ANALYTICAL CHEMISTRY (2008) 80(16): 6159-6167
Biomarker discovery in neurodegenerative diseases: A proteomic approach
Shi M, Caudle WM, Zhang J.
Neurobiol Dis Early Edition: published 26-Sep-2008
MALDI-TOF/TOF-MS Reveals Elevated Serum Haptoglobin and Amyloid A in Behcet’s Disease
Liming Mao, Hongtao Dong, Peizeng Yang, Hongyan Zhou, Xiangkun Huang, Xiaomin Lin, and Aize Kijlstra
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4500-4507
Functional proteomic profiling of AML predicts response and survival
Kornblau SM, Tibes R, Qiu Y, Chen W, Kantarjian HM, Andreeff M, Coombes KR, Mills GB.
Blood Early Edition: published 7-Oct-2008
Pilot proteomic profile of differentially regulated proteins in right atrial appendage before and after cardiac surgery using cardioplegia and cardiopulmonary bypass
Clements RT, Smejkal G, Sodha NR, Ivanov AR, Asara JM, Feng J, Lazarev A, Gautam S, Senthilnathan V, Khabbaz KR, Bianchi C, Sellke FW.
Circulation (2008) 118(14 Suppl): S24-31
Tissue proteomics for cancer biomarker development - Laser microdissection and 2D-DIGE -
Kondo T.
BMB Rep (2008) 41(9): 626-34
Proteomic study of the impact of the JAK2-V617F mutation on the phenotype of essential thrombocythemia
Mossuz P, Arlotto M, Hermouet S, Bouamrani A, Lippert E, Girodon F, Dobo I, Vincent P, Cahn JY, Berger F.
Exp Hematol Early Edition: published 4-Oct-2008
Proteomic Analysis Demonstrates Adolescent Vulnerability to Lasting Hippocampal Changes Following Chronic Alcohol Consumption
Hargreaves GA, Quinn H, Kashem MA, Matsumoto I, McGregor IS.
Alcohol Clin Exp Res Early Edition: published 18-Oct-2008
Human receptor for activated protein kinase C1 associates with polyglutamine aggregates and modulates polyglutamine toxicity
Lam W, Chan WM, Lo TW, Wong AK, Wu CC, Chan HY.
Biochem Biophys Res Commun Early Edition: published 20-Oct-2008
Toward a Fast, Easy, and Versatile Immobilization of Biomolecules into Carbon Nanotube/Polysulfone-Based Biosensors for the Detection of hCG Hormone
Samuel Sánchez, Mònica Roldán, Sandra Pérez, and Esteve Fàbregas
ANALYTICAL CHEMISTRY (2008) 80(17): 6508-6514
Proteome Analysis of Membrane Fractions in Colorectal Carcinomas by Using 2D-DIGE Saturation Labeling
Patricia Alfonso, Marta Cañamero, Francisco Fernández-Carbonié, Antonio Núñez, and J. Ignacio Casal
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4247-4255
Applications of proteomics in the study of inflammatory bowel diseases: Current status and future directions with available technologies
Alex P, Gucek M, Li X.
Inflamm Bowel Dis Early Edition: published 9-Oct-2008
Ultrasensitive Detection of Cytokines Enabled by Nanoscale ZnO Arrays
Viktor Adalsteinsson, Omkar Parajuli, Stephen Kepics, Abhishek Gupta, W. Brian Reeves, and Jong-in Hahm
ANALYTICAL CHEMISTRY (2008) 80(17): 6594-6601
Proteomics Identification of Cyclophilin A as a Potential Prognostic Factor and Therapeutic Target in Endometrial Carcinoma
Zhengyu Li, Xia Zhao, Shujun Bai, Zhi Wang, Lijuan Chen, Yuquan Wei, and Canhua Huang
Mol Cell Proteomics (2008) 7(10): 1810-1823
Sperm Chromatin: Fertile Grounds for Proteomic Discovery of Clinical Tools
Tammy F. Wu and Diana S. Chu
Mol Cell Proteomics (2008) 7(10): 1876-1886
Analysis of expression and comparative profile of normal placental tissue proteins and those in preeclampsia patients using proteomic approaches
Jin H, Ma KD, Hu R, Chen Y, Yang F, Yao J, Li XT, Yang PY.
Anal Chim Acta (2008) 629(1-2): 158-64
Comparative proteomics and molecular mechanical analysis in CDA-II induced therapy of LCI-D20 hepatocellular carcinoma model
Fan HZ, Liu H, Zhang C, Gao DM, Xue Q, Chen J, Sun RX, Liu YK, Yang PY
J Cancer Res Clin Oncol Early Edition: published 2008 Oct 14
Molecular mechanisms of action of imatinib mesylate in human ovarian cancer: a proteomic analysis
Patel BB, He YA, Li XM, Frolov A, Vanderveer L, Slater C, Schilder RJ, von Mehren M, Godwin AK, Yeung AT.
Cancer Genomics Proteomics (2008) 5(3-4): 137-49
Identification of prognosis-related proteins in advanced gastric cancer by mass spectrometry-based comparative proteomics
Jia SQ, Niu ZJ, Zhang LH, Zhong XY, Shi T, Du H, Zhang GG, Hu Y, Su XL, Ji JF.
J Cancer Res Clin Oncol Early Edition: published 1-Oct-2008
Dietary supplementation with selenomethylselenocysteine produces a differential proteomic response
Mahn AV, Toledo HM, Ruz M
J Nutr Biochem Early Edition: published 2008 Oct 14
Labeless Immunosensor Assay for Prostate Specific Antigen with Picogram per Milliliter Limits of Detection Based upon an ac Impedance Protocol
Andrew C. Barton, Frank Davis, and Séamus P. J. Higson
ANALYTICAL CHEMISTRY (2008) 80(16): 6198-6205
Urine in Clinical Proteomics
Stephane Decramer, Anne Gonzalez de Peredo, Benjamin Breuil, Harald Mischak, Bernard Monsarrat, Jean-Loup Bascands, and Joost P. Schanstra
Mol Cell Proteomics (2008) 7(10): 1850-1862
Combination of alpha-1-acid glycoprotein and alpha-fetoprotein as an improved diagnostic tool for hepatocellular carcinoma
Bachtiar I, Santoso JM, Atmanegara B, Tai SS, Gani RA, Hasan I, Adrianus LL, Sulaiman A, Gu J
Clin Chim Acta Early Edition: published 2008 Sep 30
Identification of proteins to predict the molecular basis for the observed gender susceptibility in a rat model of alcoholic steatohepatitis by 2-D gel proteomics
Atrayee Banerjee, William K. Russell, Arul Jayaraman, Shashi K. Ramaiah
PROTEOMICS (2008) 8(20): 4327-4337
Proteomic profiling of beta-cells using a classical approach - two-dimensional gel electrophoresis
Süss C, Solimena M.
Exp Clin Endocrinol Diabetes (2008) 116(Suppl 1): S13-20
Peritoneal fluid proteome in women with different ASRM stages of endometriosis
Ferrero S, Gillott DJ, Remorgida V, Anserini P, Ragni N, Grudzinskas JG
Gynecol Endocrinol (2008) 24(8): 433-41
Identification of GRP75 as an Independent Favorable Prognostic Marker of Neuroblastoma by a Proteomics Analysis
Hsu WM, Lee H, Juan HF, Shih YY, Wang BJ, Pan CY, Jeng YM, Chang HH, Lu MY, Lin KH, Lai HS, Chen WJ, Tsay YG, Liao YF, Hsieh FJ.
Clin Cancer Res (2008) 14(19): 6237-45
Proteomic identification of haptoglobin as a stroke plasma biomarker in spontaneously hypertensive stroke-prone rats
Kiga C, Sakurai H, Goto H, Hayashi K, Shimada Y, Saiki I.
Life Sci (2008) 83(17-18): 625-31
Detection of acute renal allograft rejection by analysis of renal tissue proteomics in rat models of renal transplantation
Dai Y, Lv T, Wang K, Huang Y, Li D, Liu J.
Saudi J Kidney Dis Transpl (2008) 19(6): 952-9
Increased expression of Annexin A2 in oral squamous cell carcinoma
Zhong LP, Wei KJ, Yang X, Zhang L, Zhou XJ, Pan HY, Li J, Chen WT, Zhang ZY.
Arch Oral Biol Early Edition: published 24-Sep-2008
Proteomic Characterization of Mouse Cytosolic and Membrane Prostate Fractions: High Levels of Free SUMO Peptides Are Androgen-Regulated
Danielle Caron, Éric Winstall, Yutaka Inaguma, Sébastien Michaud, Francine Lettre, Sylvie Bourassa, Isabelle Kelly, Guy G. Poirier, Robert L. Faure, and Robert M. Tanguay
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4492-4499
Biomarkers for the lung cancer diagnosis and their advances in proteomics
Sung HJ, Cho JY.
BMB Rep (2008) 41(9): 615-25
Proteome approach for identification of schistosomiasis japonica vaccine candidate antigen
Abdel-Hafeez EH, Kikuchi M, Watanabe K, Ito T, Yu C, Chen H, Nara T, Arakawa T, Aoki Y, Hirayama K.
Parasitol Int Early Edition: published 7-Oct-2008
Improved diagnosis of colorectal cancer using a combination of fecal occult blood and novel fecal protein markers
Karl J, Wild N, Tacke M, Andres H, Garczarek U, Rollinger W, Zolg W.
Clin Gastroenterol Hepatol (2008) 6(10): 1122-8
Metadegradomics: Toward in Vivo Quantitative Degradomics of Proteolytic Post-translational Modifications of the Cancer Proteome
Alain Doucet, Georgina S. Butler, David Rodriguez, Anna Prudova, and Christopher M. Overall
Mol Cell Proteomics (2008) 7(10): 1925-1951
Comparative analysis of extracellular and intracellular proteomes of twelve Listeria monocytogenes strains: differential protein expression is correlated to serovar
Dumas E, Meunier B, Berdagué JL, Chambon C, Desvaux M, Hébraud M.
Appl Environ Microbiol Early Edition: published 3-Oct-2008
Rare peptide segments are found significantly more often in proto-oncoproteins than control proteins: implications for immunology and oncology
Trost B, Kanduc D, Kusalik A.
J R Soc Interface Early Edition: published 23-Oct-2008
Preliminary study of proteomic shift from normal to premalignant laryngeal lesions and to laryngeal squamous cell carcinoma
Cheng L, Zhou L, Tao L, Zhang M, Cui J, Liu Y.
Acta Otolaryngol Early Edition: published 27-Sep-2008
Preparation of a DNA Aptamer−Pt Complex and Its Use in the Colorimetric Sensing of Thrombin and Anti-Thrombin Antibodies
Akon Higuchi, Yi-Di Siao, Siou-Ting Yang, Pei-Vin Hsieh, Hisashi Fukushima, Yung Chang, Ruoh-Chyu Ruaan, and Wen-Yih Chen
ANALYTICAL CHEMISTRY (2008) 80(17): 6580-6586
A proteomic approach to paclitaxel chemoresistance in ovarian cancer cell lines
Di Michele M, Della Corte A, Cicchillitti L, Del Boccio P, Urbani A, Ferlini C, Scambia G, Donati MB, Rotilio D.
Biochim Biophys Acta Early Edition: published 10-Oct-2008
A proteomic approach to identifying new drug targets (potentiating topoisomerase II poisons)
Jenkins JR.
Br J Radiol (2008) 81 Spec No 1: S69-77.
Application of a global proteomic approach to archival precursor lesions: deleted in malignant brain tumors 1 and tissue transglutaminase 2 are upregulated in pancreatic cancer precursors
Cheung W, Darfler MM, Alvarez H, Hood BL, Conrads TP, Habbe N, Krizman DB, Mollenhauer J, Feldmann G, Maitra A
Pancreatology (2008) 8(6): 608-16
Genomics and proteomics: a new approach for assessing thrombotic risk in autoimmune diseases
López-Pedrera C, Barbarroja N, Aguirre M, Torres L, Velasco F, Cuadrado M.
Lupus (2008) 17(10): 905-916
Salivary Proteomics for Oral Cancer Biomarker Discovery
Hu S, Arellano M, Boontheung P, Wang J, Zhou H, Jiang J, Elashoff D, Wei R, Loo JA, Wong DT.
Clin Cancer Res (2008) 14(19): 6246-6252
Proteomics of chondrocytes with special reference to phosphorylation changes of proteins in stretched human chondrosarcoma cells
Piltti J, Häyrinen J, Karjalainen HM, Lammi MJ.
Biorheology (2008) 45(3-4): 323-35
Psychiatric disorders biomarker identification: from proteomics to systems biology
Reckow S, Gormanns P, Holsboer F, Turck CW.
Pharmacopsychiatry (2008) 41(Suppl 1): S70-7
Noninvasive molecular biomarkers for the detection of colorectal cancer
Kim HJ, Yu MH, Kim H, Byun J, Lee C.
BMB Rep (2008) 41(10): 685-92
15-Prostaglandin Dehydrogenase Expression Alone or in Combination with ACSM1 Defines a Subgroup of the Apocrine Molecular Subtype of Breast Carcinoma
Julio E. Celis, Pavel Gromov, Teresa Cabezon, Jose M. A. Moreira, Esbern Friis, Karin Jirstrom, Antonio Llombart-Bosch, Vera Timmermans-Wielenga, Fritz Rank, and Irina Gromova
Mol Cell Proteomics (2008) 7(10): 1795-1809
Ligand and Protein Fishing with Heat Shock Protein 90 Coated Magnetic Beads
M. P. Marszałł, R. Moaddel, S. Kole, M. Gandhari, M. Bernier, and I. W. Wainer
ANALYTICAL CHEMISTRY (2008) 80(19): 7571-7575
Pharmaco-Proteomic Study of Hydroxyurea-Induced Modifications in the Sickle Red Blood Cell Membrane Proteome
Ghatpande SS, Choudhary PK, Quinn CT, Goodman SR
Exp Biol Med (Maywood) Early Edition: published 2008 Oct 10
A proteomics study on human breast cancer cell lines by fluorogenic derivatization-liquid chromatography/tandem mass spectrometry
Imai K, Ichibangase T, Saitoh R, Hoshikawa Y.
Biomed Chromatogr (2008) 22(11): 1304-1314
Characterization by mass spectrometry of an unknown polysiloxane sample used under uncontrolled medical conditions for cosmetic surgery
Cédric Schneider, Michel Sablier, Bernard Desmazières
Rapid Communications in Mass Spectrometry (2008) 22(21): 3353-3361
Characterization of the Human Cerebrospinal Fluid Phosphoproteome by Titanium Dioxide Affinity Chromatography and Mass Spectrometry
Justyna Maria Czarna Bahl, Søren Skov Jensen, Martin R. Larsen, and Niels H. H. Heegaard
ANALYTICAL CHEMISTRY (2008) 80(16): 6308-6316
Proteomic analysis reveals selective impediment of neuronal remodeling upon Borna disease virus infection
Suberbielle E, Stella A, Pont F, Monnet C, Mouton E, Lamouroux L, Monsarrat B, Gonzalez-Dunia D.
J Virol Early Edition: published 1-Oct-2008
The Role of Proteomics in Clinical Cardiovascular Biomarker Discovery
Alistair V. G. Edwards, Melanie Y. White, and Stuart J. Cordwell
Mol Cell Proteomics (2008) 7(10): 1824-1837
In vivo vitamin C supplementation increases phosphoinositol transfer protein expression in peripheral blood mononuclear cells from healthy individuals
Griffiths HR, Willetts RS, Grant MM, Mistry N, Lunec J, Bevan RJ.
Br J Nutr Early Edition: published 24-Oct-2008
Pharmacodynamic Assessment of Histone Deacetylase Inhibitors: Infrared Vibrational Spectroscopic Imaging of Protein Acetylation
Tsoching Chen, Min-Jung Lee, Yeong Sang Kim, Sunmin Lee, Shivaani Kummar, Martin Gutierrez, Stephen M. Hewitt, Jane B. Trepel, and Ira W. Levin
ANALYTICAL CHEMISTRY (2008) 80(16): 6390-6396
Integrative Proteomic and Cytological Analysis of the Effects of Extracellular Ca2+ Influx on Pinus bungeana Pollen Tube Development
Xiaoqin Wu, Tong Chen, Maozhong Zheng, Yanmei Chen, Nianjun Teng, Jozef Šamaj, František Baluška, and Jinxing Lin
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4299-4312
Limited variation in the major urinary proteins of laboratory mice
Cheetham SA, Smith AL, Armstrong SD, Beynon RJ, Hurst JL.
Physiol Behav Early Edition: published 17-Oct-2008
Snake Venomics of the Lesser Antillean Pit Vipers Bothrops caribbaeus and Bothrops lanceolatus: Correlation with Toxicological Activities and Immunoreactivity of a Heterologous Antivenom
José María Gutiérrez, Libia Sanz, José Escolano, Julián Fernández, Bruno Lomonte, Yamileth Angulo, Alexandra Rucavado, David A. Warrell, and Juan J. Calvete
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4396-4408
Proteomic Analysis of Human Cerebral Endothelial Cells Activated by Glutamate/MK-801: Significance in Ischemic Stroke Injury
Minagar A, Steven Alexander J, Kelley RE, Harper M, Jennings MH.
J Mol Neurosci Early Edition: published 9-Oct-2008
Proteomic profiling of Plasmodium sporozoite maturation identifies new proteins essential for parasite development and infectivity
Lasonder E, Janse CJ, van Gemert GJ, Mair GR, Vermunt AM, Douradinha BG, van Noort V, Huynen MA, Luty AJ, Kroeze H, Khan SM, Sauerwein RW, Waters AP, Mann M, Stunnenberg HG.
PLoS Pathog (2008) 4(10): e1000195
Changes in the Gallus gallus Proteome Induced by Marek’s Disease Virus
Mialy F. Ramaroson, James Ruby, Michael B. Goshe, and Hsiao-Ching Liu
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4346-4358
Proteomic characterization of mouse cartilage degradation in vitro
Wilson R, Belluoccio D, Little CB, Fosang AJ, Bateman JF.
Arthritis Rheum (2008) 58(10): 3120-3131
Heme Transport and Detoxification in Nematodes: Subproteomics Evidence of Differential Role of Glutathione Transferases
Samïrah Perally, E. James LaCourse, Alison M. Campbell, and Peter M. Brophy
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4557-4565
Changes induced by dietary energy intake and divergent selection for muscle fat content in rainbow trout (Oncorhynchus mykiss), assessed by transcriptome and proteome analysis of the liver
Kolditz CI, Paboeuf G, Borthaire M, Esquerre D, Sancristobal M, Lefevre F, Medale F.
BMC Genomics (2008) 9(1): 506
Human Embryonic and Mesenchymal Stem Cells Express Different Nuclear Proteomes
Jaishankar A, Barthelery M, Freeman WM, Salli U, Ritty T, Vrana K.
Stem Cells Dev Early Edition: published 26-Sep-2008
Hemocyte-lineage marker proteins in a crustacean, the freshwater crayfish, Pacifastacus leniusculus
Chenglin Wu, Irene Söderhäll, Young-A Kim, Haipeng Liu, Kenneth Söderhäll
PROTEOMICS (2008) 8(20): 4226-4235
Characterization of the Secretome of Suspension Cultures of Medicago Species Reveals Proteins Important for Defense and Development
Lucia Kusumawati, Nijat Imin, and Michael A. Djordjevic
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4508-4520
The proteome profile of two cell lines and their xenografts isolated from a patient with clear cell sarcoma (soft tissue melanoma)
Dimas K, Tsimplouli C, Anagnostopoulos AK, Mahaira L, Iliopoulou E, Perez S, Vougas K, Tsangaris GT.
Cancer Genomics Proteomics (2008) 5(3-4): 175-237
In vivo proteome dynamics during early bovine myogenesis
Thibault Chaze, Bruno Meunier, Christophe Chambon, Catherine Jurie, Brigitte Picard
PROTEOMICS (2008) 8(20): 4236-4248
PPDB, the Plant Proteomics Database at Cornell
Sun Q, Zybailov B, Majeran W, Friso G, Olinares PD, van Wijk KJ.
Nucl Acids Res Early Edition: published 2-Oct-2008
Platelet storage lesion: a new understanding from a proteomic perspective
Thon JN, Schubert P, Devine DV
Transfus Med Rev (2008) 22(4): 268-79
Shotgun metaproteomics of the human distal gut microbiota
Verberkmoes NC, Russell AL, Shah M, Godzik A, Rosenquist M, Halfvarson J, Lefsrud MG, Apajalahti J, Tysk C, Hettich RL, Jansson JK.
ISME J Early Edition: published 30-Oct-2008
Comparative Proteomical Analysis of Zygotic Embryo and Endosperm from Coffea arabica Seeds
Koshino LL, Gomes CP, Silva LP, Eira MT, Bloch Jr C, Franco OL, Mehta A.
J Agric Food Chem Early Edition: published 30-Oct-2008
Quantitative proteomic analysis of primary neurons reveals diverse changes in synaptic protein content in fmr1 knockout mice
Liao L, Park SK, Xu T, Vanderklish P, Yates JR 3rd.
Proc Natl Acad Sci U S A (2008) 105(40): 15281-6
Shotgun Proteomic Analysis of Cerebrospinal Fluid Using Off-Gel Electrophoresis as the First-Dimension Separation
Lashanda N. Waller, Kevin Shores, and Daniel R. Knapp
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4577-4584
Proteomic analysis reveals selective impediment of neuronal remodeling upon Borna disease virus infection
Suberbielle E, Stella A, Pont F, Monnet C, Mouton E, Lamouroux L, Monsarrat B, Gonzalez-Dunia D.
J Virol Early Edition: published 1-Oct-2008
Proteomic analysis of alterations in the secretome of Arabidopsis thaliana suspension cells subjected to nutritional phosphate deficiency
Hue T. Tran, William C. Plaxton
PROTEOMICS (2008) 8(20): 4317-4326
Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast
de Godoy LM, Olsen JV, Cox J, Nielsen ML, Hubner NC, Fröhlich F, Walther TC, Mann M.
Nature (2008) 455(7217): 1251-4
Enhanced Detection of CNS Cell Secretome in Plasma Protein-Depleted Cerebrospinal Fluid
Eric Thouvenot, Serge Urbach, Christelle Dantec, Joël Poncet, Martial Séveno, Edith Demettre, Patrick Jouin, Jacques Touchon, Joël Bockaert, and Philippe Marin
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4409-4421
Impact of cyclopentenone-oxylipins on the proteome of Arabidopsis thaliana
Dueckershoff K, Mueller S, Mueller MJ, Reinders J
Biochim Biophys Acta Early Edition: published 2008 Sep 20
HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot
Lima T, Auchincloss AH, Coudert E, Keller G, Michoud K, Rivoire C, Bulliard V, de Castro E, Lachaize C, Baratin D, Phan I, Bougueleret L, Bairoch A
Nucl Acids Res Early Edition: published 2008 Oct 11
Serological proteome analysis of Staphylococcus aureus isolated from sub-clinical mastitis
Tedeschi G, Taverna F, Negri A, Piccinini R, Nonnis S, Ronchi S, Zecconi A.
Vet Microbiol Early Edition: published 27-Aug-2008
Comparative analysis of proteome differential regulation during cell dedifferentiation in Arabidopsis
Brahmananda Reddy Chitteti, Feng Tan, Hana Mujahid, Bryce G. Magee, Susan M. Bridges, Zhaohua Peng
PROTEOMICS (2008) 8(20): 4303-4316
Physiology of Streptococcus thermophilus during the late stage of milk fermentation with special regard to sulfur amino-acid metabolism
Luciana Herve-Jimenez, Isabelle Guillouard, Eric Guedon, Céline Gautier, Samira Boudebbouze, Pascal Hols, Véronique Monnet, Françoise Rul, Emmanuelle Maguin
PROTEOMICS (2008) 8(20): 4273-4286
Proteome-based comparative analyses of growth stages reveal new cell-cycle dependent functions in the predatory bacterium Bdellovibrio bacteriovorus
Dori-Bachash M, Dassa B, Pietrokovski S, Jurkevitch E.
Appl Environ Microbiol Early Edition: published 3-Oct-2008
Enhanced structural and functional genome elucidation of the arsenite-oxidizing strain Herminiimonas arsenicoxydans by proteomics data
Weiss S, Carapito C, Cleiss J, Koechler S, Turlin E, Coppee JY, Heymann M, Kugler V, Stauffert M, Cruveiller S, Medigue C, Van Dorsselaer A, Bertin PN, Arsene-Ploetze F
Biochimie Early Edition: published 2008 Sep 25
Surface components of Porphyromonas gingivalis
Yoshimura F, Murakami Y, Nishikawa K, Hasegawa Y, Kawaminami S.
J Periodontal Res Early Edition: published 7-Oct-2008
Detection of Escherichia coli and Salmonella typhimurium Using Interdigitated Microelectrode Capacitive Immunosensors: The Importance of Transducer Geometry
Olivier Laczka, Eva Baldrich, Francesc Xavier Muñoz, and Fco. Javier del Campo
ANALYTICAL CHEMISTRY (2008) 80(19): 7239-7247
Comparative analysis of extracellular and intracellular proteomes of twelve Listeria monocytogenes strains: differential protein expression is correlated to serovar
Dumas E, Meunier B, Berdagué JL, Chambon C, Desvaux M, Hébraud M.
Appl Environ Microbiol Early Edition: published 3-Oct-2008
Comparison of the Membrane Subproteomes during Growth of a New Pseudomonas Strain on Lysogeny Broth Medium, Glucose, and Phenol
Dimitrios G. Papasotiriou, Stavroula Markoutsa, Bjoern Meyer, Anastasia Papadioti, Michael Karas, and Georgios Tsiotis
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4278-4288
Staphylococcus aureus elicits marked alterations in the airway proteome during early pneumonia
Ventura CL, Higdon R, Hohmann L, Martin D, Kolker E, Liggitt HD, Skerrett SJ, Rubens CE
Infect Immun Early Edition: published 2008 Oct 13
Proteomic analysis of curdlan-producing Agrobacterium sp. in response to pH downshift
Jin LH, Um HJ, Yin CJ, Kim YH, Lee JH.
J Biotechnol Early Edition: published 6-Sep-2008
PhoP: a missing piece in the intricate puzzle of Mycobacterium tuberculosis virulence
Gonzalo-Asensio J, Mostowy S, Harders-Westerveen J, Huygen K, Hernández-Pando R, Thole J, Behr M, Gicquel B, MartÃn C.
PLoS ONE (2008) 3(10): e3496
Ortho-proteogenomics: Multiple proteomes investigation through orthology and a new MS-based protocol
Gallien S, Perrodou E, Carapito C, Deshayes C, Reyrat JM, Van Dorsselaer A, Poch O, Schaeffer C, Lecompte O.
Genome Res Early Edition: published 27-Oct-2008
Comparison of Two-Dimensional Fractionation Techniques for Shotgun Proteomics
James A. Dowell, Dustin C. Frost, Jiang Zhang, and Lingjun Li
ANALYTICAL CHEMISTRY (2008) 80(17): 6715-6723
Cell physiology and protein secretion of Bacillus licheniformis compared to Bacillus subtilis
Voigt B, Antelmann H, Albrecht D, Ehrenreich A, Maurer KH, Evers S, Gottschalk G, van Dijl JM, Schweder T, Hecker M.
J Mol Microbiol Biotechnol (2009) 16(1-2): 53-68
Detection and Identification of Coxiella burnetii Based on the Mass Spectrometric Analyses of the Extracted Proteins
Lenka Hernychova, Rudolf Toman, Fedor Ciampor, Martin Hubalek, Jana Vackova, Ales Macela, and Ludovit Skultety
ANALYTICAL CHEMISTRY (2008) 80(18): 7097-7104
Differential Mass Spectrometry of Rat Plasma Reveals Proteins That Are Responsive to 17β-Estradiol and a Selective Estrogen Receptor Modulator PPT
Xuemei Zhao, Ekaterina G. Deyanova, Laura S. Lubbers, Pete Zafian, Jenny J. Li, Andy Liaw, Qinghua Song, Yi Du, Robert E. Settlage, Gerry J. Hickey, Nathan A. Yates, and Ronald C. Hendrickson
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4373-4383
Proteomics studies reveal important information on small molecule therapeutics: a case study on plasma proteins
Zolla L.
Drug Discov Today Early Edition: published 27-Oct-2008
The discovery and early validation of novel plasma biomarkers in mild-to-moderate Alzheimer's disease patients responding to treatment with rosiglitazone
Akuffo EL, Davis JB, Fox SM, Gloger IS, Hosford D, Kinsey EE, Jones NA, Nock CM, Roses AD, Saunders AM, Mark Skehel J, Smith MA, Cutler P.
Biomarkers (2008) 13(6): 618-36
Comprehensive Characterization of Heat Shock Protein 27 Phosphorylation in Human Endothelial Cells Stimulated by the Microbial Dithiole Thiolutin
Shujia Dai, Yifeng Jia, Shiaw-Lin Wu, Jeff S. Isenberg, Lisa A. Ridnour, Russell W. Bandle, David A. Wink, David D. Roberts, and Barry L. Karger
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4384-4395
Snake Venomics of the Lesser Antillean Pit Vipers Bothrops caribbaeus and Bothrops lanceolatus: Correlation with Toxicological Activities and Immunoreactivity of a Heterologous Antivenom
José María Gutiérrez, Libia Sanz, José Escolano, Julián Fernández, Bruno Lomonte, Yamileth Angulo, Alexandra Rucavado, David A. Warrell, and Juan J. Calvete
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4396-4408
A proteomic approach to identifying new drug targets (potentiating topoisomerase II poisons)
Jenkins JR.
Br J Radiol (2008) 81 Spec No 1: S69-77.
Temporal Metabonomic Modeling of L-Arginine-Induced Exocrine Pancreatitis
Eszter Bohus, Muireann Coen, Hector C. Keun, Timothy M. D. Ebbels, Olaf Beckonert, John C. Lindon, Elaine Holmes, Béla Noszál, and Jeremy K. Nicholson
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4435-4445
Proteomic analysis of Latrodectus tredecimguttatus venom for uncovering potential latrodectism-related proteins
Duan Z, Yan X, Cao R, Liu Z, Wang X, Liang S.
J Biochem Mol Toxicol (2008) 22(5): 328-336
Heme Transport and Detoxification in Nematodes: Subproteomics Evidence of Differential Role of Glutathione Transferases
Samïrah Perally, E. James LaCourse, Alison M. Campbell, and Peter M. Brophy
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4557-4565
Molecular mechanisms of action of imatinib mesylate in human ovarian cancer: a proteomic analysis
Patel BB, He YA, Li XM, Frolov A, Vanderveer L, Slater C, Schilder RJ, von Mehren M, Godwin AK, Yeung AT.
Cancer Genomics Proteomics (2008) 5(3-4): 137-49
In vivo vitamin C supplementation increases phosphoinositol transfer protein expression in peripheral blood mononuclear cells from healthy individuals
Griffiths HR, Willetts RS, Grant MM, Mistry N, Lunec J, Bevan RJ.
Br J Nutr Early Edition: published 24-Oct-2008
On-Chip, Cell-Based Microarray Immunofluorescence Assay for High-Throughput Analysis of Target Proteins
Tiago G. Fernandes, Seok-Joon Kwon, Moo-Yeal Lee, Douglas S. Clark, Joaquim M. S. Cabral, and Jonathan S. Dordick
ANALYTICAL CHEMISTRY (2008) 80(17): 6633-6639
Reverse-phase protein lysate microarrays for cell signaling analysis
Spurrier B, Ramalingam S, Nishizuka S.
Nat Protoc (2008) 3(11): 1796-1808
Systematic Investigation of Optimal Aptamer Immobilization for Protein−Microarray Applications
Johanna-Gabriela Walter, Öznur Kökpinar, Karl Friehs, Frank Stahl, and Thomas Scheper
ANALYTICAL CHEMISTRY (2008) 80(19): 7372-7378
Multifunctional Protein Microarrays for Cultivation of Cells and Immunodetection of Secreted Cellular Products
Caroline N. Jones, Ji Youn Lee, James Zhu, Gulnaz Stybayeva, Erlan Ramanculov, Mark A. Zern, and Alexander Revzin
ANALYTICAL CHEMISTRY (2008) 80(16): 6351-6357
HIT: a versatile proteomics platform for multianalyte phenotyping of cytokines, intracellular proteins and surface molecules
Kattah MG, Coller J, Cheung RK, Oshidary N, Utz PJ
Nat Med Early Edition: published 2008 Oct 12
Improving Protein Array Performance: Focus on Washing and Storage Conditions
Nidhi Nath, Robin Hurst, Brad Hook, Poncho Meisenheimer, Kate Q. Zhao, Nadine Nassif, Robert F. Bulleit, and Douglas R. Storts
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4475-4482
Comprehensive Characterization of Heat Shock Protein 27 Phosphorylation in Human Endothelial Cells Stimulated by the Microbial Dithiole Thiolutin
Shujia Dai, Yifeng Jia, Shiaw-Lin Wu, Jeff S. Isenberg, Lisa A. Ridnour, Russell W. Bandle, David A. Wink, David D. Roberts, and Barry L. Karger
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4384-4395
The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry
Villén J, Gygi SP.
Nat Protoc (2008) 3(10): 1630-8
Mass Spectrometry Analysis of Phosphopeptides after Peptide Carboxy Group Derivatization
Yawei Xu, Lijuan Zhang, Haojie Lu, and Pengyuan Yang
ANALYTICAL CHEMISTRY (2008) 80(21): 8324-8328
Evaluation of the utility of neutral-loss-dependent MS3 strategies in large-scale phosphorylation analysis
Judit Villén, Sean A. Beausoleil, Steven P. Gygi
PROTEOMICS (2008) 8(21): 4444-4452
A Portrait of Tissue Phosphoprotein Stability in the Clinical Tissue Procurement Process
Virginia Espina, Kirsten H. Edmiston, Michael Heiby, Mariaelena Pierobon, Manuela Sciro, Barbara Merritt, Stacey Banks, Jianghong Deng, Amy J. VanMeter, David H. Geho, Lucia Pastore, Joel Sennesh, Emanuel F. Petricoin, III, and Lance A. Liotta
Mol Cell Proteomics (2008) 7(10): 1998-2018
Comprehensive Profiling of Histone Modifications Using a Label-Free Approach and Its Applications in Determining Structure−Function Relationships
Paul Drogaris, Hugo Wurtele, Hiroshi Masumoto, Alain Verreault, and Pierre Thibault
ANALYTICAL CHEMISTRY (2008) 80(17): 6698-6707
Determination of pKa Values of Individual Histidine Residues in Proteins Using Mass Spectrometry
Masaru Miyagi and Takashi Nakazawa
ANALYTICAL CHEMISTRY (2008) 80(17): 6481-6487
Identification of CDK2 substrates in human cell lysates
Chi Y, Welcker M, Hizli AA, Posakony JJ, Aebersold R, Clurman BE
Genome Biol (2008) 9(10): R149
Enhanced detection and identification of multiply phosphorylated peptides using TiO2 enrichment in combination with MALDI TOF/TOF MS
Andreas Schmidt, Edina Csaszar, Gustav Ammerer, Karl Mechtler
PROTEOMICS (2008) 8(21): 4577-4592
Tissue-Specific Expression and Post-Translational Modification of Histone H3 Variants
Benjamin A. Garcia, C. Eric Thomas, Neil L. Kelleher, and Craig A. Mizzen
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4225-4236
Successive and Selective Release of Phosphorylated Peptides Captured by Hydroxy Acid-Modified Metal Oxide Chromatography
Yutaka Kyono, Naoyuki Sugiyama, Koshi Imami, Masaru Tomita, and Yasushi Ishihama
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4585-4593
Quantitative phosphoproteomics - an emerging key technology in signal-transduction research
Thiemo B. Schreiber, Nina Mäusbacher, Susanne B. Breitkopf, Kathrin Grundner-Culemann, Henrik Daub
PROTEOMICS (2008) 8(21): 4416-4432
Gas-Phase Fragmentation of Peptides by MALDI in-Source Decay with Limited Amide Hydrogen (1H/2H) Scrambling
Nicolai Bache, Kasper D. Rand, Peter Roepstorff, and Thomas J. D. Jørgensen
ANALYTICAL CHEMISTRY (2008) 80(16): 6431-6435
Characterization of Post-Translational Modifications of the Linker Histones H1 and H5 from Chicken Erythrocytes Using Mass Spectrometry
Ambrosius P. L. Snijders, Sayampong Pongdam, Stan J. Lambert, Christopher M. Wood, John P. Baldwin, and Mark J. Dickman
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4326-4335
Quantitative Phosphoproteome Analysis of Lysophosphatidic Acid Induced Chemotaxis Applying Dual-Step 18O Labeling Coupled with Immobilized Metal-Ion Affinity Chromatography
Shi-Jian Ding, Yingchun Wang, Jon M. Jacobs, Wei-Jun Qian, Feng Yang, Aleksey V. Tolmachev, Xiuxia Du, Wei Wang, Ronald J. Moore, Matthew E. Monroe, Samuel O. Purvine, Katrina Waters, Tyler H. Heibeck, Joshua N. Adkins, David G. Camp II, Richard L. Klemke, and Richard D. Smith
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4215-4224
Unraveling Molecular Complexity of Phosphorylated Human Cardiac Troponin I by Top Down Electron Capture Dissociation/Electron Transfer Dissociation Mass Spectrometry
Vlad Zabrouskov, Ying Ge, Jae Schwartz, and Jeffery W. Walker
Mol Cell Proteomics (2008) 7(10): 1838-1849
Towards functional phosphoproteomics by mapping differential phosphorylation events in signaling networks
Sergio de la Fuente van Bentem, Wieslawa I. Mentzen, Alberto de la Fuente, Heribert Hirt
PROTEOMICS (2008) 8(21): 4453-4465
Methods for analyzing peptides and proteins on a chromatographic timescale by electron-transfer dissociation mass spectrometry
Udeshi ND, Compton PD, Shabanowitz J, Hunt DF, Rose KL
Nat Protoc (2008) 3(11): 1709-17
Application of electron transfer dissociation (ETD) for the analysis of posttranslational modifications
Julia Wiesner, Thomas Premsler, Albert Sickmann
PROTEOMICS (2008) 8(21): 4466-4483
Identification of Cell Surface Markers to Differentiate Rat Endothelial and Fibroblast Cells Using Lectin Arrays and LC−ESI-MS/MS
Ji Eun Lee, Shama P. Mirza, Daniela N. Didier, Mark Scalf, Michael Olivier, Andrew S. Greene, and Lloyd M. Smith
ANALYTICAL CHEMISTRY (2008) 80(21): 8269-8275
Unraveling the histone's potential: A proteomics perspective
Brumbaugh J, Phanstiel D, Coon JJ
Epigenetics Early Edition: published 2008 Sep 17
Phosphoproteomics, oncogenic signaling and cancer research
Poh-Kuan Chong, Huiyin Lee, Jacklyn Wai-Fun Kong, Marie Chiew-Shia Loh, Chee-Hong Wong, Yoon-Pin Lim
PROTEOMICS (2008) 8(21): 4370-4382
Capillary Electrophoresis-Electrospray Ionization Mass Spectrometry for Rapid and Sensitive N-glycan Analysis of Glycoproteins as 9-Fluorenylmethyl Derivatives
Nakano M, Higo D, Arai E, Nakagawa T, Kakehi K, Taniguchi N, Kondo A.
Glycobiology Early Edition: published 25-Oct-2008
Proteomics of chondrocytes with special reference to phosphorylation changes of proteins in stretched human chondrosarcoma cells
Piltti J, Häyrinen J, Karjalainen HM, Lammi MJ.
Biorheology (2008) 45(3-4): 323-35
Identification of Proteins Adducted by Lipid Peroxidation Products in Plasma and Modifications of Apolipoprotein A1 with a Novel Biotinylated Phospholipid Probe
Matthew E. Szapacs, Hye-Young H. Kim, Ned A. Porter, and Daniel C. Liebler
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4237-4246
Phosphoproteomics: unraveling the signaling web
Huang PH, White FM
Mol Cell (2008) 31(6): 777-81
Strategies for proteomic analysis of non-enzymatically glycated proteins
Priego Capote F, Sanchez JC.
Mass Spectrom Rev Early Edition: published 23-Oct-2008
Analytical Utility of Small Neutral Losses from Reduced Species in Electron Capture Dissociation Studied Using SwedECD Database
Maria Fälth, Mikhail M. Savitski, Michael L. Nielsen, Frank Kjeldsen, Per E. Andren, and Roman A. Zubarev
ANALYTICAL CHEMISTRY (2008) 80(21): 8089-8094
Quantitative protein microarrays for time-resolved measurements of protein phosphorylation
Ulrike Korf, Sophia Derdak, Achim Tresch, Frauke Henjes, Sabrina Schumacher, Christian Schmidt, Bettina Hahn, Wolf D. Lehmann, Annemarie Poustka, Tim Beissbarth, Ursula Klingmüller
PROTEOMICS (2008) 8(21): 4603-4612
Signal transduction pathways of mantle cell lymphoma: A phosphoproteome-based study
Daniela Cecconi, Alberto Zamò, Elena Bianchi, Alice Parisi, Stefano Barbi, Alberto Milli, Sara Rinalducci, Andreas Rosenwald, Elena Hartmann, Lello Zolla, Marco Chilosi
PROTEOMICS (2008) 8(21): 4495-4506
Proteomic analysis of protein S-nitrosylation
Federico Torta, Vera Usuelli, Antonio Malgaroli, Angela Bachi
PROTEOMICS (2008) 8(21): 4484-4494
Membrane Glycoproteins Associated with Breast Tumor Cell Progression Identified by a Lectin Affinity Approach
Yanfei Wang, Xiaoping Ao, Huy Vuong, Meghana Konanur, Fred R. Miller, Steve Goodison, and David M. Lubman
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4313-4325
A Phosphotyrosine-Imprinted Polymer Receptor for the Recognition of Tyrosine Phosphorylated Peptides
Emgenbroich M, Borrelli C, Shinde S, Lazraq I, Vilela F, Hall AJ, Oxelbark J, De Lorenzi E, Courtois J, Simanova A, Verhage J, Irgum K, Karim K, Sellergren B
Chemistry (2008) 14(31): 9516-9529
Analysis of protein phosphorylation by monolithic extraction columns based on poly(divinylbenzene) containing embedded titanium dioxide and zirconium dioxide nano-powders
Matthias Rainer, Harald Sonderegger, Rania Bakry, Christian W. Huck, Sandra Morandell, Lukas A. Huber, Douglas T. Gjerde, Günther K. Bonn
PROTEOMICS (2008) 8(21): 4593-4602
Liquid chromatography/mass spectrometry determination of endogenous plasma acetyl and palmitoyl carnitines as potential biomarkers of ?-oxidation in mice
Zhi Liu, Abdul E. Mutlib, Jianyao Wang, Rasmy E. Talaat
Rapid Communications in Mass Spectrometry (2008) 22(21): 3434-3442
Quantitative phosphoproteome analysis of a mouse liver cell line reveals specificity of phosphatase inhibitors
Cuiping Pan, Florian Gnad, Jesper V. Olsen, Matthias Mann
PROTEOMICS (2008) 8(21): 4534-4546
Matrix-assisted laser desorption/ionization quadrupole ion trap time-of-flight (MALDI-QIT-TOF)-based imaging mass spectrometry reveals a layered distribution of phospholipid molecular species in the mouse retina
Takahiro Hayasaka, Naoko Goto-Inoue, Yuki Sugiura, Nobuhiro Zaima, Hiroki Nakanishi, Kentaro Ohishi, Setsuko Nakanishi, Takayuki Naito, Ryo Taguchi, Mitsutoshi Setou
Rapid Communications in Mass Spectrometry (2008) 22(21): 3415-3426
Cyclophosphoramidate Ion as Mass Defect Marker for Efficient Detection of Protein Serine Phosphorylation
Yu Shi, Bekim Bajrami, Martha Morton, and Xudong Yao
ANALYTICAL CHEMISTRY (2008) 80(19): 7614-7623
De Novo Sequencing of Unique Sequence Tags for Discovery of Post-Translational Modifications of Proteins
Yufeng Shen, Nikola Tolić, Kim K. Hixson, Samuel O. Purvine, Gordon A. Anderson, and Richard D. Smith
ANALYTICAL CHEMISTRY (2008) 80(20): 7742-7754
Modulation of Retinoic Acid Receptor Alpha Activity by Lysine Methylation in the DNA Binding Domain
M. D. Mostaqul Huq, Sung Gil Ha, and Li-Na Wei
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4538-4545
Targeted Online Liquid Chromatography Electron Capture Dissociation Mass Spectrometry for the Localization of Sites of in Vivo Phosphorylation in Human Sprouty2
Steve M. M. Sweet, Faraz K. Mardakheh, Kevin J. P. Ryan, Amy J. Langton, John K. Heath, and Helen J. Cooper
ANALYTICAL CHEMISTRY (2008) 80(17): 6650-6657
Quantitative Analysis of global Ubiquitination in HeLa Cells by Mass Spectrometry
David Meierhofer, Xiaorong Wang, Lan Huang, and Peter Kaiser
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4566-4576
Sequential Interval Motif Search: Unrestricted Database Surveys of Global MS/MS Data Sets for Detection of Putative Post-Translational Modifications
Jian Liu, Alexandre Erassov, Patrick Halina, Myra Canete, Nguyen Dinh Vo, Clement Chung, Gerard Cagney, Alexandr Ignatchenko, Vincent Fong, and Andrew Emili
ANALYTICAL CHEMISTRY (2008) 80(20): 7846-7854
Identification of Four Novel Types of in Vitro Protein Modifications
Gang Xing, Junmei Zhang, Yue Chen, and Yingming Zhao
JOURNAL OF PROTEOME RESEARCH (2008) 7(10): 4603-4608
Quantitative phosphoproteomics by mass spectrometry: Past, present, and future
Aleksandra Nita-Lazar, Hideshiro Saito-Benz, Forest M. White
PROTEOMICS (2008) 8(21): 4433-4443
Global and Site-Specific Quantitative Phosphoproteomics: Principles and Applications
Macek B, Mann M, Olsen JV.
Annu Rev Pharmacol Toxicol Early Edition: published 3-Oct-2008
Characterization of the Human Cerebrospinal Fluid Phosphoproteome by Titanium Dioxide Affinity Chromatography and Mass Spectrometry
Justyna Maria Czarna Bahl, Søren Skov Jensen, Martin R. Larsen, and Niels H. H. Heegaard
ANALYTICAL CHEMISTRY (2008) 80(16): 6308-6316
Monitoring Ligand Modulation of Protein−Protein Interactions by Mass Spectrometry: Estrogen Receptor α-SRC1
Cédric Bovet, Marc Ruff, Sylvia Eiler, Florence Granger, Ryan Wenzel, Alexis Nazabal, Dino Moras, and Renato Zenobi
ANALYTICAL CHEMISTRY (2008) 80(20): 7833-7839
Identifying specific protein interaction partners using quantitative mass spectrometry and bead proteomes
Trinkle-Mulcahy L, Boulon S, Lam YW, Urcia R, Boisvert FM, Vandermoere F, Morrice NA, Swift S, Rothbauer U, Leonhardt H, Lamond A.
J Cell Biol (2008) 183(2): 223-39
Native mass spectrometry: a bridge between interactomics and structural biology
Heck AJ.
Nat Methods (2008) 5(11): 927-33
Multiplexed Affinity-Based Protein Complex Purification
Jishan Li, Jianping Ge, Yadong Yin, and Wenwan Zhong
ANALYTICAL CHEMISTRY (2008) 80(18): 7068-7074
MINT and IntAct contribute to the Second BioCreative challenge: serving the text-mining community with high quality molecular interaction data
Chatr-aryamontri A, Kerrien S, Khadake J, Orchard S, Ceol A, Licata L, Castagnoli L, Costa S, Derow C, Huntley R, Aranda B, Leroy C, Thorneycroft D, Apweiler R, Cesareni G, Hermjakob H
Genome Biol (2008) 9 Suppl 2: S5
Generation of a highly inducible Gal4->Fluc universal reporter mouse for in vivo bioluminescence imaging
Pichler A, Prior JL, Luker GD, Piwnica-Worms D.
Proc Natl Acad Sci U S A (2008) 105(41): 15932-7
Simplified Protocol for Detection of Protein−Ligand Interactions via Surface-Enhanced Resonance Raman Scattering and Surface-Enhanced Fluorescence
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Analysis of Major Protein−