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SPS' DigestIssue 51, 16-May-2008 |
Significance analysis of microarray for relative quantitation of LC/MS data in proteomics
Roxas BA, Li Q.
BMC Bioinformatics (2008) 9(1): 187
ROC analysis: applications to the classification of biological sequences and 3D structures
Paolo Sonego, Andras Kocsor, and Sandor Pongor
Brief Bioinform (2008) 9(3): 198-209; doi:10.1093/bib/bbm064
Automatic Validation of Phosphopeptide Identifications by the MS2/MS3 Target-Decoy Search Strategy
Xinning Jiang, Guanghui Han, Shun Feng, Xiaogang Jiang, Mingliang Ye, Xuebiao Yao, and Hanfa Zou
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1640-1649
Low-coverage massively parallel pyrosequencing of cDNAs enables proteomics in non-model species: Comparison of a species-specific database generated by pyrosequencing with databases from related species for proteome analysis of pea chloroplast envelopes
Bräutigam A, Shrestha RP, Whitten D, Wilkerson CG, Carr KM, Froehlich JE, Weber AP.
J Biotechnol Early Edition: published 17-Feb-2008
MassNet: a functional annotation service for protein mass spectrometry data
Park D, Kim BC, Cho SW, Park SJ, Choi JS, Kim SI, Bhak J, Lee S.
Nucleic Acids Res Early Edition: published 29-Apr-2008
GlycoBase and autoGU: tools for HPLC-based glycan analysis
Matthew P. Campbell, Louise Royle, Catherine M. Radcliffe, Raymond A. Dwek, and Pauline M. Rudd
Bioinformatics (2008) 24(9): 1214-1216
ProdoNet: identification and visualization of prokaryotic gene regulatory and metabolic networks
Klein J, Leupold S, Münch R, Pommerenke C, Johl T, Kärst U, Jänsch L, Jahn D, Retter I.
Nucleic Acids Res Early Edition: published 25-Apr-2008
Statistical Similarities between Transcriptomics and Quantitative Shotgun Proteomics Data
Norman Pavelka, Marjorie L. Fournier, Selene K. Swanson, Mattia Pelizzola, Paola Ricciardi-Castagnoli, Laurence Florens, and Michael P. Washburn
Mol Cell Proteomics (2008) 7(4): 631-644
Accelerating String Set Matching in FPGA Hardware for Bioinformatics Research
Dandass YS, Burgess SC, Lawrence M, Bridges SM.
BMC Bioinformatics (2008) 9(1): 197
Installation and use of the Computational Proteomics Analysis System (CPAS)
Myers T, Law W, Eng JK, McIntosh M
Curr Protoc Bioinformatics (2007) Chapter 13: Unit 13.5
Systematic Approach for Validating the Ubiquitinated Proteome
Seyfried NT, Xu P, Duong DM, Cheng D, Hanfelt J, Peng J
Anal Chem Early Edition: published 2008 Apr 24
PepLine: A Software Pipeline for High-Throughput Direct Mapping of Tandem Mass Spectrometry Data on Genomic Sequences
Myriam Ferro, Marianne Tardif, Erwan Reguer, Romain Cahuzac, Christophe Bruley, Thierry Vermat, Estelle Nugues, Marielle Vigouroux, Yves Vandenbrouck, Jérôme Garin, and Alain Viari
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1873-1883
A Hybrid Method for Peptide Identification Using Integer Linear Optimization, Local Database Search, and Quadrupole Time-of-Flight or OrbiTrap Tandem Mass Spectrometry
Peter A. DiMaggio, Jr., Christodoulos A. Floudas, Bingwen Lu, and John R. Yates, III
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1584-1593
Proteiomic patterns for endometrial cancer using SELDI-TOF-MS
Zhu LR, Zhang WY, Yu L, Zheng YH, Hu J, Liao QP.
J Zhejiang Univ Sci B (2008) 9(4): 286-90
Identification of lung cancer patients by serum protein profiling using surface-enhanced laser desorption/ionization time-of-flight mass spectrometry
Han KQ, Huang G, Gao CF, Wang XL, Ma B, Sun LQ, Wei ZJ.
Am J Clin Oncol (2008) 31(2): 133-9
ISPIDER Central: an integrated database web-server for proteomics
Siepen JA, Belhajjame K, Selley JN, Embury SM, Paton NW, Goble CA, Oliver SG, Stevens R, Zamboulis L, Martin N, Poulovassillis A, Jones P, Côté R, Hermjakob H, Pentony MM, Jones DT, Orengo CA, Hubbard SJ.
Nucleic Acids Res Early Edition: published 25-Apr-2008
Steps towards a repertoire of comprehensive maps of human protein interaction networks: the Human Proteotheque Initiative (HuPI)
Coulombe B, Blanchette M, Jeronimo C.
Biochem Cell Biol (2008) 86(2): 149-56
Using the Proteomics Identifications Database (PRIDE)
Martens L, Jones P, Cote R
Curr Protoc Bioinformatics (2008) Chapter 13: Unit 13.8
HIP2: An Online Database of Human Plasma Proteins from Healthy Individuals
Saha S, Harrison SH, Shen C, Tang H, Radivojac P, Arnold RJ, Zhang X, Chen JY.
BMC Med Genomics (2008) 1(1): 12
CrossSearch, a User-friendly Search Engine for Detecting Chemically Cross-linked Peptides in Conjugated Proteins
Owen W. Nadeau, Gerald J. Wyckoff, Justin E. Paschall, Antonio Artigues, Jessica Sage, Maria T. Villar, and Gerald M. Carlson
Mol Cell Proteomics (2008) 7(4): 739-749
A cross-validation study to select a classification procedure for clinical diagnosis based on proteomic mass spectrometry
Valkenborg D, Van Sanden S, Lin D, Kasim A, Zhu Q, Haldermans P, Jansen I, Shkedy Z, Burzykowski T.
Stat Appl Genet Mol Biol (2008) 7: Article12
An a posteriori calibration method for improving protein identification accuracy in proteomics using electrospray ionization time-of-flight tandem mass spectrometry
Ishino Y, Taniguchi H.
Rapid Commun Mass Spectrom (2008) 22(8): 1335-8
Serum protein profiling in mice: Identification of Factor XIIIa as a potential biomarker for muscular dystrophy
Sharmini Alagaratnam, Bart J. A. Mertens, Johannes C. Dalebout, André M. Deelder, Gert-Jan B. van Ommen, Johan T. den Dunnen, Peter A. C. 't Hoen
PROTEOMICS (2008) 8(8): 1552-1563
A Web-based Tool for in Silico Biomarker Discovery Based on Tissue-specific Protein Profiles in Normal and Cancer Tissues
Erik Bjorling, Cecilia Lindskog, Per Oksvold, Jerker Linne, Caroline Kampf,Sophia Hober, Mathias Uhlen, and Fredrik Ponten
Mol Cell Proteomics (2008) 7(5): 825-844
Using ProSight PTM and related tools for targeted protein identification and characterization with high mass accuracy tandem MS data
Leduc RD, Kelleher NL
Curr Protoc Bioinformatics (2007) Chapter 13: Unit 13.6
Analysis of iTRAQ data using Mascot and Peaks quantification algorithms
Lacerda CM, Xin L, Rogers I, Reardon KF.
Brief Funct Genomic Proteomic Early Edition: published 4-Apr-2008
SALAMI (Spectrum ALignments Using High Accuracy Mass and HIgh Sensitivity Data): How To Make the Best out of Hybrid MS/MS Data
Flavio Monigatti and Hanno Steen
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1984-1993
Peak Bagging for Peptide Mass Fingerprinting
He Z, Yang C, Yu W.
Bioinformatics Early Edition: published 7-Apr-2008
PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows
Deutsch EW, Lam H, Aebersold R.
EMBO Rep (2008) 9(5): 429-34
Overview of kidney and urine proteome databases
Yoshida Y, Miyamoto M, Bo X, Yaoita E, Yamamoto T.
Contrib Nephrol (2008) 160: 186-97
IMGT, the international ImMunoGeneTics information system for Immunoinformatics. Methods for querying IMGT databases, tools, and Web resources in the context of immunoinformatics
Lefranc MP.
Methods Mol Biol (2007) 409: 19-42
Using GFS to identify encoding genomic loci from protein mass spectral data
Holmes MR, Giddings MC
Curr Protoc Bioinformatics (2008) Chapter 13: Unit 13.9
Comparison of Mascot and X!Tandem Performance for Low and High Accuracy Mass Spectrometry and the Development of an Adjusted Mascot Threshold
Markus Brosch, Sajani Swamy, Tim Hubbard, and Jyoti Choudhary
Mol Cell Proteomics (2008) 7(5): 962-970
MASIC: A software program for fast quantitation and flexible visualization of chromatographic profiles from detected LC-MS(/MS) features
Monroe ME, Shaw JL, Daly DS, Adkins JN, Smith RD.
Comput Biol Chem Early Edition: published 26-Feb-2008
Overview of tandem mass spectrometry (MS/MS) database search algorithms
Kapp E, Schutz F
Curr Protoc Protein Sci (2007) Chapter 25: Unit25.2
Using support vector machine combined with auto covariance to predict protein-protein interactions from protein sequences
Guo Y, Yu L, Wen Z, Li M.
Nucleic Acids Res Early Edition: published 4-Apr-2008
EPO-KB: A searchable knowledge base of biomarker to protein links
Lustgarten JL, Kimmel C, Ryberg H, Hogan W.
Bioinformatics Early Edition: published 9-Apr-2008
GlycoWorkbench: A Tool for the Computer-Assisted Annotation of Mass Spectra of Glycans
Alessio Ceroni, Kai Maass, Hildegard Geyer, Rudolf Geyer, Anne Dell, and Stuart M. Haslam
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1650-1659
Mathematical biodescriptors of proteomics maps: Background and applications
Basak SC, Gute BD
Curr Opin Drug Discov Devel (2008) 11(3): 320-6
The Reductive Desulfurization of Met and Cys Residues in Bovine RNase A Is Associated with trans Lipids Formation in a Mimetic Model of Biological Membranes
Carla Ferreri, Chryssostomos Chatgilialoglu, Armida Torreggiani, Anna Maria Salzano, Giovanni Renzone, and Andrea Scaloni
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2007-2015
Mapping the Larval Midgut Lumen Proteome of Helicoverpa armigera, a Generalist Herbivorous Insect
Yannick Pauchet, Alexander Muck, Aleš Svatoš, David G. Heckel, and Susanne Preiss
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1629-1639
Proteomic and Metabolomic Analysis of Smooth Muscle Cells Derived From the Arterial Media and Adventitial Progenitors of Apolipoprotein E-Deficient Mice
Mayr M, Zampetaki A, Sidibe A, Mayr U, Yin X, De Souza AI, Chung YL, Madhu B, Quax PH, Hu Y, Griffiths JR, Xu Q.
Circ Res Early Edition: published 3-Apr-2008
Nuclear proteome analysis of undifferentiated mouse embryonic stem and germ cells
Buhr N, Carapito C, Schaeffer C, Kieffer E, Van Dorsselaer A, Viville S.
Electrophoresis Early Edition: published 30-Apr-2008
Proteomics Studies of Brassinosteroid Signal Transduction Using Prefractionation and Two-dimensional DIGE
Wenqiang Tang, Zhiping Deng, Juan A. Oses-Prieto, Nagi Suzuki, Shengwei Zhu, Xin Zhang, Alma L. Burlingame, and Zhi-Yong Wang
Mol Cell Proteomics (2008) 7(4): 728-738
Quantitative Shotgun Proteomics of Enriched Heterocysts from Nostoc sp. PCC 7120 Using 8-Plex Isobaric Peptide Tags
Saw Yen Ow, Tanai Cardona, Arnaud Taton, Ann Magnuson, Peter Lindblad, Karin Stensjö, and Phillip C. Wright
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1615-1628
Trafficking and Postsecretory Events Responsible for the Formation of Secreted Human Salivary Peptides: A Proteomics Approach
Irene Messana, Tiziana Cabras, Elisabetta Pisano, Maria Teresa Sanna, Alessandra Olianas, Barbara Manconi, Mariagiuseppina Pellegrini, Gaetano Paludetti, Emanuele Scarano, Antonella Fiorita, Stefania Agostino, Alessia M. Contucci, Lea Calo, Pasqualina M. Picciotti, Armando Manni, Anders Bennick, Alberto Vitali, Chiara Fanali, Rosanna Inzitari, and Massimo Castagnola
Mol Cell Proteomics (2008) 7(5): 911-926
Sodium-deoxycholate-assisted tryptic digestion and identification of proteolytically resistant proteins
Lin Y, Zhou J, Bi D, Chen P, Wang X, Liang S.
Anal Biochem Early Edition: published 14-Mar-2008
Proteomic Analysis of Hepatic Protein Profiles in Rare Minnow (Gobiocypris rarus) Exposed to Perfluorooctanoic Acid
Yanhong Wei, Leo. L. Chan, Dazhi Wang, Hongxia Zhang, Jianshe Wang, and Jiayin Dai
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1729-1739
Proteomic characterisation of the conditioned media produced by the visceral endoderm-like cell lines HepG2 and End2: Towards a defined medium for the osteogenic/chondrogenic differentiation of embryonic stem cells
Kang Y, Nagy JM, Polak JM, Mantalaris A.
Stem Cells Dev Early Edition: published 31-Mar-2008
Rooteomics: the challenge of discovering plant defense-related proteins in roots
Mehta A, Magalhães BS, Souza DS, Vasconcelos EA, Silva LP, Grossi-de-Sa MF, Franco OL, da Costa PH, Rocha TL.
Curr Protein Pept Sci (2008) 9(2): 108-16
Proteomic analysis of pathogenesis-related proteins (PRs) induced by compatible and incompatible interactions of pepper mild mottle virus (PMMoV) in Capsicum chinense L3 plants
Elvira MI, Galdeano MM, Gilardi P, GarcÃa-Luque I, Serra MT.
J Exp Bot Early Edition: published 28-Mar-2008
Sorting signals, N-terminal modifications and abundance of the chloroplast proteome
Zybailov B, Rutschow H, Friso G, Rudella A, Emanuelsson O, Sun Q, van Wijk KJ
PLoS ONE (2008) 3(4): e1994
Predominant Release of Lysosomal Enzymes by Newborn Rat Microglia After LPS Treatment Revealed by Proteomic Studies
Jun Liu, Zhen Hong, Jianqing Ding, Jianrong Liu, Jing Zhang, and Shengdi Chen
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2033-2049
Rapid MALDI-TOF-MS analysis in the study of interaction between whole bacterial cells and human target molecules: Binding of Bifidobacterium to human plasminogen
Candela M, Fiori J, Dipalo S, Naldi M, Gotti R, Brigidi P
J Microbiol Methods Early Edition: published 2008 Mar 6
Protein fingerprints of cultured CA3-CA1 hippocampal neurons: comparative analysis of the distribution of synaptosomal and cytosolic proteins
Corti V, Sanchez-Ruiz Y, Piccoli G, Bergamaschi A, Cannistraci CV, Pattini L, Cerutti S, Bachi A, Alessio M, Malgaroli A.
BMC Neurosci (2008) 9(1): 36
Synthesis, Chaperoning, and Metabolism of Proteins Are Regulated by NT-3/TrkC Signaling in the Medulloblastoma Cell Line DAOY
Mariella Gruber-Olipitz, Thomas Ströbel, Wei-Qiang Chen, Michael A. Grotzer, Franz Quehenberger, Irene Slavc, and Gert Lubec
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1932-1944
A Combined Metabolomic and Proteomic Investigation of the Effects of a Failure to Express Dystrophin in the Mouse Heart
Melanie K. Gulston, Denis V. Rubtsov, Helen J. Atherton, Kieran Clarke, Kay E. Davies, Kathryn S. Lilley, and Julian L. Griffin
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2069-2077
Shotgun proteomic analysis of vaginal fluid from women in late pregnancy
Klein LL, Jonscher KR, Heerwagen MJ, Gibbs RS, McManaman JL
Reprod Sci (2008) 15(3): 263-73
Protective effects of peroxiredoxin-1 at the injured blood-brain barrier
Schreibelt G, van Horssen J, Haseloff RF, Reijerkerk A, van der Pol SM, Nieuwenhuizen O, Krause E, Blasig IE, Dijkstra CD, Ronken E, de Vries HE.
Free Radic Biol Med Early Edition: published 16-Apr-2008
Elucidation of lipoprotein particles structure by proteomic analysis
Tonino Alonzi, Carmine Mancone, Laura Amicone, and Marco Tripodi
Expert Review of Proteomics (2008) 5(1): 91-104
Arabidopsis thaliana mutants reveal a role for CSP41a and CSP41b, two ribosome-associated endonucleases, in chloroplast ribosomal RNA metabolism
Beligni MV, Mayfield SP.
Plant Mol Biol Early Edition: published 9-Apr-2008
Modulation of the Phagosome Proteome by Interferon-{gamma}
Isabelle Jutras, Mathieu Houde, Nathan Currier, Jonathan Boulais, Sophie Duclos, Sylvie LaBoissiere, Eric Bonneil, Paul Kearney, Pierre Thibault, Eustache Paramithiotis, Patrice Hugo, and Michel Desjardins
Mol Cell Proteomics (2008) 7(4): 697-715
Differential Protein Expression Following Low Temperature Culture of Suspension CHO-K1 Cells
Kumar N, Gammell P, Meleady P, Henry M, Clynes M
BMC Biotechnol (2008) 8(1): 42
Proteome of human minor salivary gland secretion
Siqueira WL, Salih E, Wan DL, Helmerhorst EJ, Oppenheim FG
J Dent Res (2008) 87(5): 445-50
Proteomic analysis of hearts from frataxin knockout mice: Marked rearrangement of energy metabolism, a response to cellular stress and altered expression of proteins involved in cell structure, motility and metabolism
Robert Sutak, Xiangcong Xu, Megan Whitnall, Mohammed Abul Kashem, Daniel Vyoral, Des R. Richardson
PROTEOMICS (2008) 8(8): 1731-1741
Phosphoproteome Analysis of Drosophila melanogaster Embryos
Bo Zhai, Judit Villén, Sean A. Beausoleil, Julian Mintseris, and Steven P. Gygi
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1675-1682
New Insight into Stimulus-Induced Plasticity of the Olfactory Epithelium in Mus musculus by Quantitative Proteomics
Jon Barbour, Eva M. Neuhaus, Heike Piechura, Nadine Stoepel, Anastasia Mashukova, Daniela Brunert, Barbara Sitek, Kai Stühler, Helmut E. Meyer, Hanns Hatt, and Bettina Warscheid
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1594-1605
Quantitative Proteomics Reveals Regulation of Dynamic Components within TATA-binding Protein (TBP) Transcription Complexes
Florence Mousson, Annemieke Kolkman, W. W. M. Pim Pijnappel, H. Th. Marc Timmers, and Albert J. R. Heck
Mol Cell Proteomics (2008) 7(5): 845-852
Differential soluble protein expression between Trichomonas vaginalis isolates exhibiting low and high virulence phenotypes
Patrícia Cuervo, Elisa Cupolillo, Constança Britto, Luis Javier González, Fernando Costa e Silva-Filho, Letícia Coutinho Lopes, Gilberto Barbosa Domont, Jose Batista De Jesus
Journal of Proteomics (2008) 71(1): 109-122
Chilling stress-induced proteomic changes in rice roots
Lee DG, Ahsan N, Lee SH, Lee JJ, Bahk JD, Kang KY, Lee BH
J Plant Physiol Early Edition: published 2008 Apr 21
Multiple sclerosis-related proteins identified in cerebrospinal fluid by advanced mass spectrometry
Marcel P. Stoop, Lennard J. Dekker, Mark K. Titulaer, Peter C. Burgers, Peter A. E. Sillevis Smitt, Theo M. Luider, Rogier Q. Hintzen
PROTEOMICS (2008) 8(8): 1576-1585
Proteomic analysis of the winter-protected phenotype of hibernating ground squirrel intestine
Martin SL, Epperson LE, Rose JC, Kurtz CC, Ane C, Carey HV
Am J Physiol Regul Integr Comp Physiol Early Edition: published 2008 Apr 23
A Differential Proteomic Approach Reveals an Evolutionary Conserved Regulation of Nme Proteins by Fe65 in C. elegans and Mouse
Napolitano F, D'Angelo F, Bimonte M, Perrina V, D'Ambrosio C, Scaloni A, Russo T, Zambrano N.
Neurochem Res Early Edition: published 10-Apr-2008
Characterization of Domain Interfaces in Monomeric and Dimeric ATP Synthase
Ilka Wittig, Jean Velours, Rosemary Stuart, and Hermann Schagger
Mol Cell Proteomics (2008) 7(5): 995-1004
Proteomics as a Complementary Tool for Identifying Unintended Side Effects Occurring in Transgenic Maize Seeds As a Result of Genetic Modifications
Lello Zolla, Sara Rinalducci, Paolo Antonioli, and Pier Giorgio Righetti
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1850-1861
Chromatin proteomics and epigenetic regulatory circuits
Clemens Bonisch, Sonja M Nieratschker, Nikos K Orfanos, and Sandra B Hake
Expert Review of Proteomics (2008) 5(1): 105-119
Proteomics Analysis of Rice Lesion Mimic Mutant (spl1) Reveals Tightly Localized Probenazole-Induced Protein (PBZ1) in Cells Undergoing Programmed Cell Death
Sun Tae Kim, Sang Gon Kim, Young Hyun Kang, Yiming Wang, Jae-Yean Kim, Nari Yi, Ju-Kon Kim, Randeep Rakwal, Hee-Jong Koh, and Kyu Young Kang
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1750-1760
Characterization of Tau in Cerebrospinal Fluid Using Mass Spectrometry
Erik Portelius, Sara F. Hansson, Ai Jun Tran, Henrik Zetterberg, Pierre Grognet, Eugeen Vanmechelen, Kina Höglund, Gunnar Brinkmalm, Ann Westman-Brinkmalm, Eckhard Nordhoff, Kaj Blennow, and Johan Gobom
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2114-2120
Serum Proteomic Profiling Associated with Immune System Impaired by Stress Using ProteinChip Technology
Hui L, Diandong H, Baoxia Z, Da W, Hong Y, Xiaoyi W
Neuroimmunomodulation (2008) 14(6): 326-330
Differences in Hippocampal Protein Expression at 3 Days, 3 Weeks, and 3 Months Following Induction of Perinatal Asphyxia in the Rat
Rachel Weitzdörfer, Harald Höger, Gudrun Burda, Arnold Pollak, and Gert Lubec
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1945-1952
Monitoring of transcriptome and proteome profiles to investigate the cellular response of E. coli towards recombinant protein expression under defined chemostat conditions
Dürrschmid K, Reischer H, Schmidt-Heck W, Hrebicek T, Guthke R, Rizzi A, Bayer K.
J Biotechnol Early Edition: published 4-Mar-2008
Interdisciplinary study for the evaluation of biochemical alterations on mussel Mytilus galloprovincialis exposed to a tributyltin-polluted area
Magi E, Liscio C, Pistarino E, Santamaria B, Di Carro M, Tiso M, Scaloni A, Renzone G, Cosulich ME.
Anal Bioanal Chem Early Edition: published 10-Apr-2008
Metabolic pathways of the wheat (Triticum aestivum) endosperm amyloplast revealed by proteomics
Dupont FM
BMC Plant Biol (2008) 8(1): 39
The Identification and Characterization of Membranome Components
Dhimankrishna Ghosh, Ron C. Beavis, and John A. Wilkins
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1572-1583
Proteomic analysis of Staphylococcus aureus biofilms grown in vitro on mechanical heart valve leaflets
Bénard L, Litzler PY, Cosette P, Lemeland JF, Jouenne T, Junter GA.
J Biomed Mater Res A Early Edition: published 10-Apr-2008
Histone Acetylation and Chromatin Remodeling Are Required for UV-B-Dependent Transcriptional Activation of Regulated Genes in Maize
Casati P, Campi M, Chu F, Suzuki N, Maltby D, Guan S, Burlingame AL, Walbot V.
Plant Cell Early Edition: published 8-Apr-2008
Systematic characterization of the murine mitochondrial proteome using functionally validated cardiac mitochondria
Jun Zhang, Xiaohai Li, Michael Mueller, Yueju Wang, Chenggong Zong, Ning Deng, Thomas M. Vondriska, David A. Liem, Jeong-In Yang, Paavo Korge, Henry Honda, James N. Weiss, Rolf Apweiler, Peipei Ping
PROTEOMICS (2008) 8(8): 1564-1575
Characterization of a yjjQ mutant of avian pathogenic Escherichia coli (APEC)
Li G, Ewers C, Laturnus C, Diehl I, Alt K, Dai J, Antão EM, Schnetz K, Wieler LH.
Microbiology (2008) 154(Pt 4): 1082-1093
Psychoproteomic Analysis of Rat Cortex Following Acute Methamphetamine Exposure
Firas H. Kobeissy, Matthew W. Warren, Andrew K. Ottens, Shankar Sadasivan, Zhiqun Zhang, Mark S. Gold, and Kevin K. W. Wang
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1971-1983
Proteomic identification of p53-dependent protein phosphorylation
Rahman-Roblick R, Hellman U, Becker S, Bader FG, Auer G, Wiman KG, Roblick UJ.
Oncogene Early Edition: published 28-Apr-2008
Analysis of the Zebrafish Proteome during Embryonic Development
Margaret B. Lucitt, Thomas S. Price, Angel Pizarro, Weichen Wu, Anastasia K. Yocum, Christoph Seiler, Michael A. Pack, Ian A. Blair, Garret A. FitzGerald, and Tilo Grosser
Mol Cell Proteomics (2008) 7(5): 981-994
Gold nanoparticles and oxidative stress in Mytilus edulis
Tedesco S, Doyle H, Redmond G, Sheehan D.
Mar Environ Res Early Edition: published 26-Feb-2008
Proteomics of Two Cultivated Mushrooms Sparassis crispa and Hericium erinaceum Provides Insight into their Numerous Functional Protein Components and Diversity
Kiyotaka Horie, Randeep Rakwal, Misato Hirano, Junko Shibato, Hyung Wook Nam, Yu Sam Kim, Yoshiaki Kouzuma, Ganesh Kumar Agrawal, Yoshinori Masuo, and Masami Yonekura
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1819-1835
In Vivo Identification of the Outer Membrane Protein OmcA−MtrC Interaction Network in Shewanella oneidensis MR-1 Cells Using Novel Hydrophobic Chemical Cross-Linkers
Haizhen Zhang, Xiaoting Tang, Gerhard R. Munske, Natalia Zakharova, Li Yang, Chunxiang Zheng, Megan A. Wolff, Nikola Tolic, Gordon A. Anderson, Liang Shi, Matthew J. Marshall, James K. Fredrickson, and James E. Bruce
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1712-1720
Genome-Scale Proteomics Reveals Arabidopsis thaliana Gene Models and Proteome Dynamics
Baerenfaller K, Grossmann J, Grobei MA, Hull R, Hirsch-Hoffmann M, Yalovsky S, Zimmermann P, Grossniklaus U, Gruissem W, Baginsky S
Science Early Edition: published 2008 Apr 24
Induction of a cell-survival adaptive response in MRC-5 cells by hydroquinone
Li X, Tang S, Huang H, Yang L, Liu J, Zhuang Z.
Mutat Res Early Edition: published 10-Mar-2008
The dynamic thiol-disulphide redox proteome of the Arabidopsis thaliana chloroplast as revealed by differential electrophoretic mobility
Stroher E, Dietz KJ, Mittler R
Physiol Plant Early Edition: published 2008 Apr 19
Proteomics of the Nucleus Ovoidalis and Field L Brain Regions of Zebra Finch
Alexander Benjamin, Moses Kashem, Camille Cohen, Jennifer A. Caldwell Busby, Delanthi Salgado-Commissariat, Santosh A. Helekar, and Sanjoy K. Bhattacharya
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2121-2132
Effects of oxidative stress on protein thiols and disulphides in Mytilus edulis revealed by proteomics: Actin and protein disulphide isomerase are redox targets
McDonagh B, Sheehan D.
Mar Environ Res Early Edition: published 29-Feb-2008
Multiple Stressor-Induced Proteome Responses of Escherichia coli BL21(DE3)
Kyung-Yeon Han, Jin-Seung Park, Hyuk-Seong Seo, Keum-Young Ahn, and Jeewon Lee
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1891-1903
Interaction of antiproliferative protein Tob with the CCR4-NOT deadenylase complex
Miyasaka T, Morita M, Ito K, Suzuki T, Fukuda H, Takeda S, Inoue J, Semba K, Yamamoto T.
Cancer Sci (2008) 99(4): 755-61
Comparison of proteins expressed on secretory vesicle membranes and plasma membranes of human neutrophils
Uriarte SM, Powell DW, Luerman GC, Merchant ML, Cummins TD, Jog NR, Ward RA, McLeish KR.
J Immunol (2008) 180(8): 5575-81
The Effect of 24S-Hydroxycholesterol on Cholesterol Homeostasis in Neurons: Quantitative Changes to the Cortical Neuron Proteome
Yuqin Wang, Sabina Muneton, Jan Sjövall, Jasmina N. Jovanovic, and William J. Griffiths
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1606-1614
Proteomic Profiling of Nonenzymatically Glycated Proteins in Human Plasma and Erythrocyte Membranes
Qibin Zhang, Ning Tang, Athena A. Schepmoes, Lawrence S. Phillips, Richard D. Smith, and Thomas O. Metz
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2025-2032
Full Mass Spectrometric Characterization of Human Monoacylglycerol Lipase Generated by Large-Scale Expression and Single-Step Purification
Nikolai Zvonok, John Williams, Meghan Johnston, Lakshmipathi Pandarinathan, David R. Janero, Jing Li, Srinivasan C. Krishnan, and Alexandros Makriyannis
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2158-2164
Snake venomics of the South and Central American Bushmasters. Comparison of the toxin composition of Lachesis muta gathered from proteomic versus transcriptomic analysis
Libia Sanz, José Escolano, Massimo Ferretti, Mirtha J. Biscoglio, Elena Rivera, Ernesto J. Crescenti, Yamileth Angulo, Bruno Lomonte, José María Gutiérrez, Juan J. Calvete
Journal of Proteomics (2008) 71(1): 46-60
Proteomic Analysis of Microsomes from Lactating Bovine Mammary Gland
Lifeng Peng, Pisana Rawson, Danyl McLauchlan, Klaus Lehnert, Russell Snell, and T. William Jordan
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1427-1432
Comparative Proteomic Analysis of Indioside D-Triggered Cell Death in HeLa Cells
Chi Chun Wong, Ying Wang, Ka-Wing Cheng, Jen-Fu Chiu, Qing-Yu He, and Feng Chen
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2050-2058
Coupled Global and Targeted Proteomics of Human Embryonic Stem Cells during Induced Differentiation
Anastasia K. Yocum, Theresa E. Gratsch, Nancy Leff, John R. Strahler, Christie L. Hunter, Angela K. Walker, George Michailidis, Gilbert S. Omenn, K. Sue O'Shea, and Philip C. Andrews
Mol Cell Proteomics (2008) 7(4): 750-767
Differentiating Proteomic Biomarkers in Breast Cancer by Laser Capture Microdissection and MALDI MS
Melinda E. Sanders, Eduardo C. Dias, Baogang J. Xu, James A. Mobley, Dean Billheimer, Heinrich Roder, Julia Grigorieva, Mitchell Dowsett, Carlos L. Arteaga, and Richard M. Caprioli
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1500-1507
Multidimensional system biology: genetic markers and proteomic biomarkers of adverse pregnancy outcome in preterm birth
Buhimschi CS, Rosenberg VA, Dulay AT, Thung S, Sfakianaki AK, Bahtiyar MO, Buhimschi IA
Am J Perinatol (2008) 25(3): 175-87
Decreased Expression of Peroxiredoxins in Fuchs' Endothelial Dystrophy
Jurkunas UV, Rawe I, Bitar MS, Zhu C, Harris DL, Colby K, Joyce NC.
Invest Ophthalmol Vis Sci Early Edition: published 31-Mar-2008
Clinical proteomics and breast cancer: strategies for diagnostic and therapeutic biomarker discovery
Bertucci F, Goncalves A.
Future Oncol (2008) 4(2): 271-87
Crosstalk Between GlcNAcylation and Phosphorylation: Roles in Insulin Resistance and Glucose Toxicity
Copeland RJ, Bullen Jr JW, Hart GW.
Am J Physiol Endocrinol Metab Early Edition: published 29-Apr-2008
Monomeric Calgranulins Measured by SELDI-TOF Mass Spectrometry and Calprotectin Measured by ELISA as Biomarkers in Arthritis
de Seny D, Fillet M, Ribbens C, Maree R, Meuwis MA, Lutteri L, Chapelle JP, Wehenkel L, Louis E, Merville MP, Malaise M
Clin Chem Early Edition: published 2008 Apr 24
Reproducibility of Mass Spectrometry Based Protein Profiles for Diagnosis of Breast Cancer across Clinical Studies: A Systematic Review
Anne K. Callesen, Werner Vach, Per E. Jørgensen, Søren Cold, Ole Mogensen, Torben A. Kruse, Ole N. Jensen, and Jonna S. Madsen
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1395-1402
Protein adsorption during LDL-apheresis: proteomic analysis
Dihazi H, Koziolek MJ, Söllner T, Kahler E, Klingel R, Neuhoff R, Strutz F, Mueller GA.
Nephrol Dial Transplant Early Edition: published 8-Apr-2008
Proteome Profiling of Breast Tumors by Gel Electrophoresis and Nanoscale Electrospray Ionization Mass Spectrometry
Louise Alldridge, Gergana Metodieva, Christina Greenwood, Khalid Al-Janabi, Laura Thwaites, Paul Sauven, and Metodi Metodiev
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1458-1469
Autoantibody Profiling of Chinese Patients with Autoimmune Hepatitis Using Immunoproteomic Analysis
Qing Xia, Feng Lu, Hui-Ping Yan, Hong-Xia Wang, Xia Feng, Yan Zhao, Bing-Yv Liu, Jie Wang, Ping Li, Yan Xue, Mei-Ru Hu, Lu Qian, Ning Guo, Song-Cheng Yang, Ming-Yuan Li, Yuan-Fang Ma, Bo-An Li, Xue-Min Zhang, and Bei-Fen Shen
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1963-1970
Proteiomic patterns for endometrial cancer using SELDI-TOF-MS
Zhu LR, Zhang WY, Yu L, Zheng YH, Hu J, Liao QP.
J Zhejiang Univ Sci B (2008) 9(4): 286-90
Proteomic Analysis of Amniotic Fluid in Pregnancies with Turner Syndrome Fetuses
Ariadni Mavrou, Athanasios K. Anagnostopoulos, Aggeliki Kolialexi, Konstantinos Vougas, Nikos Papantoniou, Aris Antsaklis, Michael Fountoulakis, and George Th. Tsangaris
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1862-1866
Possible new biomarkers for COPD
Expert Review of Proteomics (2008) 5(1): 13-16
Psychoproteomic Analysis of Rat Cortex Following Acute Methamphetamine Exposure
Firas H. Kobeissy, Matthew W. Warren, Andrew K. Ottens, Shankar Sadasivan, Zhiqun Zhang, Mark S. Gold, and Kevin K. W. Wang
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1971-1983
Urinary proteome profiling to search for biomarkers in steroid-resistant nephrotic syndrome
Traum AZ, Schachter AD.
Contrib Nephrol (2008) 160: 29-36
Discovery of novel markers in allergic lung inflammation through proteomic-based technologies
Farrah Kheradmand and David B Corry
Expert Review of Proteomics (2008) 5(1): 9-12
Multiplexed Cell Signaling Analysis of Human Breast Cancer Applications for Personalized Therapy
Julia D. Wulfkuhle, Runa Speer, Mariaelena Pierobon, Julie Laird, Virginia Espina, Jianghong Deng, Enzo Mammano, Sherry X. Yang, Sandra M. Swain, Donato Nitti, Laura J. Esserman, Claudio Belluco, Lance A. Liotta, and Emanuel F. Petricoin III
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1508-1517
Evaluation of Data-Dependent versus Targeted Shotgun Proteomic Approaches for Monitoring Transcription Factor Expression in Breast Cancer
Charanjit Sandhu, Johannes A. Hewel, Gwenael Badis, Shaheynoor Talukder, Jian Liu, Timothy R. Hughes, and Andrew Emili
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1529-1541
Changes in the proteome of Huh7 cells induced by transient expression of hepatitis D virus RNA and antigens
Sérgio Mota, Marta Mendes, Deborah Penque, Ana V. Coelho, Celso Cunha
Journal of Proteomics (2008) 71(1): 71-79
Humoral Immunity Directed against Tumor-Associated Antigens As Potential Biomarkers for the Early Diagnosis of Cancer
Hailing Lu, Vivian Goodell, and Mary L. Disis
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1388-1394
Exploring the uremic toxins using proteomic technologies
Schiffer E, Mischak H, Vanholder RC.
Contrib Nephrol (2008) 160: 159-71
Differential ConA-enriched urinary proteome in rat experimental glomerular diseases
Wang Y, Chen Y, Zhang Y, Wu S, Ma S, Hu S, Zhang L, Shao C, Li M, Gao Y.
Biochem Biophys Res Commun Early Edition: published 24-Apr-2008
Detection of Bladder Cancer in Human Urine by Metabolomic Profiling Using High Performance Liquid Chromatography/Mass Spectrometry
Issaq HJ, Nativ O, Waybright T, Luke B, Veenstra TD, Issaq EJ, Kravstov A, Mullerad M
J Urol (2008) 179(6): 2422-2426
Practical approaches to proteomic biomarkers within prostate cancer radiotherapy trials
Christensen E, Evans KR, Menard C, Pintilie M, Bristow RG
Cancer Metastasis Rev Early Edition: published 2008 Apr 22
Serum proteomic profiling of obese patients: correlation with pathology and evolution after bariatric surgery
Trak-Smayra V, Dargere D, Noun R, Albuquerque M, Yaghi C, Gannagé-Yared MH, Bedossa P, Paradis V.
Gut Early Edition: published 10-Apr-2008
Prohibitin identified by proteomic analysis of prostate biopsies distinguishes hyperplasia and cancer
Ummanni R, Junker H, Zimmermann U, Venz S, Teller S, Giebel J, Scharf C, Woenckhaus C, Dombrowski F, Walther R.
Cancer Lett Early Edition: published 31-Mar-2008
Proteome alteration induced by hTERT transfection of human fibroblast cells
Mazzucchelli GD, Gabelica V, Smargiasso N, Fleron M, Ashimwe W, Rosu F, De Pauw-Gillet MC, Riou JF, De Pauw E
Proteome Science (2008) 6(1): 12
Proteomic Analysis of Climatic Keratopathy Droplets
Menegay M, Lee D, Tabbara KF, Cafaro TA, Urrets-Zavalia JA, Serra HM, Bhattacharya SK.
Invest Ophthalmol Vis Sci Early Edition: published 31-Mar-2008
New Protein Clustering of Breast Cancer Tissue Proteomics Using Actin Content as a Cellularity Indicator
Ida Pucci-Minafra, Patrizia Cancemi, Nadia Ninfa Albanese, Gianluca Di Cara, Maria Rita Marabeti, Antonio Marrazzo, and Salvatore Minafra
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1412-1418
Novel Breast Cancer Biomarkers Identified by Integrative Proteomic and Gene Expression Mapping
Keli Ou, Kun Yu, Djohan Kesuma, Michelle Hooi, Ning Huang, Wei Chen, Suet Ying Lee, Xin Pei Goh, Lay keng Tan, Jia Liu, Sou Yen Soon, Suhaimi Bin Abdul Rashid, Thomas C. Putti, Hiroyuki Jikuya, Tetsuo Ichikawa, Osamu Nishimura, Manuel Salto-Tellez, and Patrick Tan
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1518-1528
Capillary electrophoresis coupled to mass spectrometry for biomarker discovery and diagnosis of kidney diseases
Z Uuml Rbig P, Mischak H.
Contrib Nephrol (2008) 160: 107-26
Identification of lung cancer patients by serum protein profiling using surface-enhanced laser desorption/ionization time-of-flight mass spectrometry
Han KQ, Huang G, Gao CF, Wang XL, Ma B, Sun LQ, Wei ZJ.
Am J Clin Oncol (2008) 31(2): 133-9
Secreted CXCL1 Is a Potential Mediator and Marker of the Tumor Invasion of Bladder Cancer
Kawanishi H, Matsui Y, Ito M, Watanabe J, Takahashi T, Nishizawa K, Nishiyama H, Kamoto T, Mikami Y, Tanaka Y, Jung G, Akiyama H, Nobumasa H, Guilford P, Reeve A, Okuno Y, Tsujimoto G, Nakamura E, Ogawa O.
Clin Cancer Res (2008) 14(9): 2579-87
Proteomics for the Investigation of Acute Kidney Injury
Devarajan P.
Contrib Nephrol (2008) 160: 1-16
Targeted Glycoproteomic Identification of Biomarkers for Human Breast Carcinoma
Karen L. Abbott, Kazuhiro Aoki, Jae-Min Lim, Mindy Porterfield, Rachelle Johnson, Ruth M. O’Regan, Lance Wells, Michael Tiemeyer, and Michael Pierce
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1470-1480
Proteomic Analysis of Human Cervico−Vaginal Fluid Displays Differential Protein Expression in Association with Labor Onset at Term
Megan K. W. Di Quinzio, Harry M. Georgiou, Sarah J. Holdsworth-Carson, Mustafa Ayhan, Yujing J. Heng, Susan P. Walker, Gregory E. Rice, and Michael Permezel
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1916-1921
Cell-Specific Aptamer Probes for Membrane Protein Elucidation in Cancer Cells
Dihua Shangguan, Zehui Cao, Ling Meng, Prabodhika Mallikaratchy, Kwame Sefah, Hui Wang, Ying Li, and Weihong Tan
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2133-2139
Both plasma retinol-binding protein and haptoglobin precursor allele 1 in CSF: Candidate biomarkers for the progression of normal to mild cognitive impairment to Alzheimer's disease
Jung SM, Lee K, Lee JW, Namkoong H, Kim HK, Kim S, Na HR, Ha SA, Kim JR, Ko J, Kim JW.
Neurosci Lett Early Edition: published 18-Mar-2008
Proteomics and Kidney Stone Disease
Thongboonkerd V.
Contrib Nephrol (2008) 160: 142-158
High-dimensional biology to comprehend hepatocellular carcinoma
Perumal Vivekanandan and Om V Singh
Expert Review of Proteomics (2008) 5(1): 45-60
Diagnostic and prognostic biomarkers in acute renal failure
Arthur JM, Janech MG, Varghese SA, Almeida JS, Powell TB.
Contrib Nephrol (2008) 160: 53-64
Proteomics of Plasma and Urine in Primary Nephrotic Syndrome in Children
Candiano G, Musante L, Petretto A, Bruschi M, Santucci L, Urbani A, Scolari F, Gusmano R, Carraro M, Zennaro C, Vincenti F, Ghiggeri GM.
Contrib Nephrol (2008) 160: 17-28
Identification of transgelin as a potential novel biomarker for gastric adenocarcinoma based on proteomics technology
Huang Q, Huang Q, Chen W, Wang L, Lin W, Lin J, Lin X.
J Cancer Res Clin Oncol Early Edition: published 30-Apr-2008
Maternal cocaine administration in mice alters DNA methylation and gene expression in hippocampal neurons of neonatal and prepubertal offspring
Novikova SI, He F, Bai J, Cutrufello NJ, Lidow MS, Undieh AS.
PLoS ONE (2008) 3(4): e1919
Isolation and Identification of Potential Urinary Microparticle Biomarkers of Bladder Cancer
David M. Smalley, Nicholas E. Sheman, Kristina Nelson, and Dan Theodorescu
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2088-2096
Mass spectrometric quantification of asparagine synthetase in circulating leukemia cells from acute lymphoblastic leukemia patients
Susan E. Abbatiello, Yuan-Xiang Pan, Mi Zhou, Alan S. Wayne, Timothy D. Veenstra, Stephen P. Hunger, Michael S. Kilberg, John R. Eyler, Nigel G.J. Richards, Thomas P. Conrads
Journal of Proteomics (2008) 71(1): 61-70
Identification of urinary biomarkers by proteomics in newborns: use in obstructive nephropathy
Decramer S, Z Uuml Rbig P, Wittke S, Mischak H, Bascands JL, Schanstra JP.
Contrib Nephrol (2008) 160: 127-41
Comparative analysis of the tear protein profile in mycotic keratitis patients
Ananthi S, Chitra T, Bini R, Prajna NV, Lalitha P, Dharmalingam K.
Mol Vis (2008) 14: 500-7.
IMAGING MASS SPECTROMETRY REVEALS UNIQUE PROTEIN PROFILES DURING EMBRYO IMPLANTATION
Burnum KE, Tranguch S, Mi D, Daikoku T, Dey SK, Caprioli RM.
Endocrinology Early Edition: published 10-Apr-2008
Cancer Proteomics by Quantitative Shotgun Proteomics
Chen EI, Yates JR.
Mol Oncol (2007) 1(2): 144-159
Maternal deprivation affects the neuromuscular protein profile of the rat colon in response to an acute stressor later in life
Luísa V. Lopes, Laure F. Marvin-Guy, Andreas Fuerholz, Michael Affolter, Ziad Ramadan, Martin Kussmann, Laurent B. Fay, Gabriela E. Bergonzelli
Journal of Proteomics (2008) 71(1): 80-88
Protein profile in neuroblastoma cells incubated with S- and R-enantiomers of ibuprofen by iTRAQ-coupled 2-D LC-MS/MS analysis: Possible action of induced proteins on Alzheimer's disease
Jianhua Zhang, Jianjun Sui, Chi Bun Ching, Wei Ning Chen
PROTEOMICS (2008) 8(8): 1595-1607
Identification of Breast Cancer Peptide Epitopes Presented by HLA-A*0201
Oriana E. Hawkins, Rodney S. VanGundy, Annette M. Eckerd, Wilfried Bardet, Rico Buchli, Jon A. Weidanz, and William H. Hildebrand
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1445-1457
Proteomic approaches for the study of cell signaling in the renal collecting duct
Hoorn EJ, Pisitkun T, Yu MJ, Knepper MA.
Contrib Nephrol (2008) 160: 172-85
Ovarian cancer in the proteomics era
Annunziata CM, Azad N, Dhamoon AS, Whiteley G, Kohn EC.
Int J Gynecol Cancer (2008) 18(Suppl 1): 1-6
Proteomics in liver fibrosis is more than meets the eye
Cheung KJ, Tilleman K, Deforce D, Colle I, Van Vlierberghe H.
Eur J Gastroenterol Hepatol (2008) 20(5): 450-64
Combined Experimental and Statistical Strategy for Mass Spectrometry Based Serum Protein Profiling for Diagnosis of Breast Cancer: A Case-Control Study
Anne K. Callesen, Werner Vach, Per E. Jørgensen, Søren Cold, Qihua Tan, René dePont Christensen, Ole Mogensen, Torben A. Kruse, Ole N. Jensen, and Jonna S. Madsen
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1419-1426
Proteomic Screening of a Cell Line Model of Esophageal Carcinogenesis Identifies Cathepsin D and Aldo-Keto Reductase 1C2 and 1B10 Dysregulation in Barrett’s Esophagus and Esophageal Adenocarcinoma
Jean Breton, Matthew C. Gage, Alastair W. Hay, Jeffrey N. Keen, Christopher P. Wild, Clare Donnellan, John B. C. Findlay, and Laura J. Hardie
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1953-1962
Use of Peptide Analogue Diversity Library Beads for Increased Depth of Proteomic Analysis: Application to Cerebrospinal Fluid
Kevin S. Shores, D. Gomika Udugamasooriya, Thomas Kodadek, and Daniel R. Knapp
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1922-1931
Breast Tumor Microenvironment: Proteomics Highlights the Treatments Targeting Secretome
Shui-Tein Chen, Tai-Long Pan, Hsueh-Fen Juan, Tai-Yuan Chen, Yih-Shyan Lin, and Chun-Ming Huang
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1379-1387
HLA-peptide binding prediction using structural and modeling principles
Kangueane P, Sakharkar MK.
Methods Mol Biol (2007) 409: 293-9
Identification of Proteins Secreted from Leptin Stimulated MCF-7 Breast Cancer Cells: A Dual proteomic Approach
Perera CN, Spalding HS, Mohammed SI, Camarillo IG.
Exp Biol Med (Maywood) Early Edition: published 11-Apr-2008
Identification of tumor antigens that elicit a humoral immune response in breast cancer patients' sera by serological proteome analysis (SERPA)
Hamrita B, Chahed K, Kabbage M, Guillier CL, Trimeche M, Chaieb A, Chouchane L
Clin Chim Acta Early Edition: published 2008 Mar 27
Plasma Proteome Profiling of a Mouse Model of Breast Cancer Identifies a Set of Up-Regulated Proteins in Common with Human Breast Cancer Cells
Sharon J. Pitteri, Vitor M. Faca, Karen S. Kelly-Spratt, A. Erik Kasarda, Hong Wang, Qing Zhang, Lisa Newcomb, Alexei Krasnoselsky, Sophie Paczesny, Gina Choi, Matthew Fitzgibbon, Martin W. McIntosh, Christopher J. Kemp, and Samir M. Hanash
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1481-1489
Human retinal pigment epithelium proteome changes in early diabetes
Decanini A, Karunadharma PR, Nordgaard CL, Feng X, Olsen TW, Ferrington DA.
Diabetologia Early Edition: published 15-Apr-2008
Proteomic analysis of wheat proteins recognized by IgE antibodies of allergic patients
Petr ?otkovský, Martin Hubálek, Lenka Hernychová, Petr Novák, Marie Havranová, Iva ?etinová, Andrea Kitanovi?ová, Martin Fuchs, Ji?í Stulík, Ludmila Tu?ková
PROTEOMICS (2008) 8(8): 1677-1691
Genomics and proteomics in predicting cancer outcomes
Parikh AA, Johnson JC, Merchant NB.
Surg Oncol Clin N Am (2008) 17(2): 257-77
The use of blood biomarkers to predict radiation lung toxicity: a potential strategy to individualize thoracic radiation therapy
Kong FM, Ao X, Wang L, Lawrence TS.
Cancer Control (2008) 15(2): 140-50
Vgf is a novel biomarker associated with muscle weakness in amyotrophic lateral sclerosis (ALS), with a potential role in disease pathogenesis
Zhao Z, Lange DJ, Ho L, Bonini S, Shao B, Salton SR, Thomas S, Pasinetti GM
Int J Med Sci (2008) 5(2): 92-9
Two-dimensional electrophoretic comparison of metastatic and non-metastatic human breast tumors using in vitro cultured epithelial cells derived from the cancer tissues
Vydra J, Selicharova I, Smutna K, Sanda M, Matouskova E, Bursikova E, Prchalova M, Velenska Z, Coufal D, Jiracek J.
BMC Cancer (2008) 8(1): 107
Proteomic profiling and identification in peritoneal fluid of children treated by peritoneal dialysis
Raaijmakers R, Pluk W, Schroder CH, Gloerich J, Cornelissen EA, Wessels HJ, Willems JL, Monnens LA, van den Heuvel LP
Nephrol Dial Transplant Early Edition: published 2008 Apr 19
Overexpression of vimentin contributes to prostate cancer invasion and metastasis via src regulation
Wei J, Xu G, Wu M, Zhang Y, Li Q, Liu P, Zhu T, Song A, Zhao L, Han Z, Chen G, Wang S, Meng L, Zhou J, Lu Y, Wang S, Ma D.
Anticancer Res (2008) 28(1A): 327-34
Urinary Proteomics in Diabetes and CKD
Rossing K, Mischak H, Dakna M, Zürbig P, Novak J, Julian BA, Good DM, Coon JJ, Tarnow L, Rossing P.
J Am Soc Nephrol Early Edition: published 30-Apr-2008
Proteomics of Breast Cancer: The Quest for Markers and Therapeutic Targets
Hubert Hondermarck, Christophe Tastet, Ikram El Yazidi-Belkoura, Robert-Alain Toillon, and Xuefen Le Bourhis
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1403-1411
Proteomics of pancreatic cancer
Grantzdorffer I, Carl-McGrath S, Ebert MP, Rocken C
Pancreas (2008) 36(4): 329-36
Mapping of fruit allergens by 2D electrophoresis and immunodetection
Gorji Marzban, Anita Herndl, Fatemeh Maghuly, Hermann Katinger, and Margit Laimer
Expert Review of Proteomics (2008) 5(1): 61-75
A Proteomic Analysis of the Plasma Glycoproteins of a MCF-7 Mouse Xenograft: A Model System for the Detection of Tumor Markers
Christina I. Orazine, Marina Hincapie, William S. Hancock, Maureen Hattersley, and Jeff H. Hanke
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1542-1554
The proteome of the human neuroblastoma cell line SH-SY5Y: An enlarged proteome
Gilany K, Van Elzen R, Mous K, Coen E, Van Dongen W, Van Damme S, Gevaert K, Timmerman E, Vandekerckhove J, Dewilde S, Van Ostade X, Moens L.
Biochim Biophys Acta Early Edition: published 19-Mar-2008
Alteration of cystatin C levels in cerebrospinal fluid of patients with Guillain-Barré Syndrome by a proteomical approach
Yang Y, Liu S, Qin Z, Cui Y, Qin Y, Bai S.
Mol Biol Rep Early Edition: published 29-Mar-2008
Prognostic Significance of Head-and-Neck Cancer Biomarkers Previously Discovered and Identified Using iTRAQ-Labeling and Multidimensional Liquid Chromatography−Tandem Mass Spectrometry
Ajay Matta, Leroi V. DeSouza, Nootan Kumar Shukla, Siddhartha D. Gupta, Ranju Ralhan, and K. W. Michael Siu
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2078-2087
Proteomics and renal transplantation: searching for novel biomarkers and therapeutic targets
Schaub S, Wilkins JA, Nickerson P.
Contrib Nephrol (2008) 160: 65-75
Targeting Therapy for Breast Carcinoma by ATP Synthase Inhibitor Aurovertin B
Tsui-Chin Huang, Hsin-Yi Chang, Chun-Hua Hsu, Wen-Hung Kuo, King-Jen Chang, and Hsueh-Fen Juan
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1433-1444
Searching for Novel Biomarkers and NewTherapeutic Targets of Diabetic Nephropathy Using Proteomics Approaches
Thongboonkerd V.
Contrib Nephrol (2008) 160: 37-52
Application of Protein Microarrays for Multiplexed Detection of Antibodies to Tumor Antigens in Breast Cancer
Karen S. Anderson, Niroshan Ramachandran, Jessica Wong, Jacob V. Raphael, Eugenie Hainsworth, Gokhan Demirkan, Daniel Cramer, Dina Aronzon, F. Stephen Hodi, Lyndsay Harris, Tanya Logvinenko, and Joshua LaBaer
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1490-1499
Proteomic analysis of differential proteins in pancreatic carcinomas: effects of MBD1 knock-down by stable RNA interference
Liu C, Chen Y, Yu X, Jin C, Xu J, Long J, Ni Q, Fu D, Jin H, Bai C.
BMC Cancer (2008) 8(1): 121
The Proteomes of Human Parotid and Submandibular/Sublingual Gland Salivas Collected as the Ductal Secretions
Paul Denny, Fred K. Hagen, Markus Hardt, Lujian Liao, Weihong Yan, Martha Arellanno, Sara Bassilian, Gurrinder S. Bedi, Pinmannee Boontheung, Daniel Cociorva, Claire M. Delahunty, Trish Denny, Jason Dunsmore, Kym F. Faull, Joyce Gilligan, Mireya Gonzalez-Begne, Frédéric Halgand, Steven C. Hall, Xuemei Han, Bradley Henson, Johannes Hewel, Shen Hu, Sherry Jeffrey, Jiang Jiang, Joseph A. Loo, Rachel R. Ogorzalek Loo, Daniel Malamud, James E. Melvin, Olga Miroshnychenko, Mahvash Navazesh, Richard Niles, Sung Kyu Park, Akraporn Prakobphol, Prasanna Ramachandran, Megan Richert, Sarah Robinson, Melissa Sondej, Puneet Souda, Mark A. Sullivan, Jona Takashima, Shawn Than, Jianghua Wang, Julian P. Whitelegge, H. Ewa Witkowska, Lawrence Wolinsky, Yongming Xie, Tao Xu, Weixia Yu, Jimmy Ytterberg, David T. Wong, John R. Yates III, and Susan J. Fisher
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1994-2006
Different protein profiles in inferior colliculus and cerebellum: A comparative proteomic study
Becker M, Nothwang HG, Friauf E.
Neuroscience Early Edition: published 20-Feb-2008
Understanding and managing renal cell carcinoma: can proteomic studies contribute to clinical practice?
Craven RA, Banks RE.
Contrib Nephrol (2008) 160: 88-106
Multidimensional proteomics analysis of amniotic fluid to provide insight into the mechanisms of idiopathic preterm birth
Buhimschi IA, Zhao G, Rosenberg VA, Abdel-Razeq S, Thung S, Buhimschi CS
PLoS ONE (2008) 3(4): e2049
Proteomic Comparison of Nasopharyngeal Cancer Cell Lines C666-1 and NP69 Identifies Down-Regulation of Annexin II and beta(2)-Tubulin for Nasopharyngeal Carcinoma
Chan CM, Wong SC, Lam MY, Hui EP, Chan JK, Lo ES, Cheuk W, Wong MC, Tsao SW, Chan AT.
Arch Pathol Lab Med (2008) 132(4): 675-83
Proteomic Analysis of Apoptosis Induced by Xanthoangelol, a Major Constituent of Angelica keiskei, in Neuroblastoma
Motani K, Tabata K, Kimura Y, Okano S, Shibata Y, Abiko Y, Nagai H, Akihisa T, Suzuki T.
Biol Pharm Bull (2008) 31(4): 618-26
Detection of New Screening Markers for Fetal Aneuploidies in Maternal Plasma: A Proteomic Approach
Reddy CS, Holzgreve W, Hahn S
Methods Mol Biol (2008) 444: 311-326
The dynamic thiol-disulphide redox proteome of the Arabidopsis thaliana chloroplast as revealed by differential electrophoretic mobility
Stroher E, Dietz KJ, Mittler R
Physiol Plant Early Edition: published 2008 Apr 19
Nuclear proteome analysis of undifferentiated mouse embryonic stem and germ cells
Buhr N, Carapito C, Schaeffer C, Kieffer E, Van Dorsselaer A, Viville S.
Electrophoresis Early Edition: published 30-Apr-2008
Interaction of Ganoderma triterpenes with doxorubicin and proteomic characterization of the possible molecular targets of Ganoderma triterpenes
Yue QX, Xie FB, Guan SH, Ma C, Yang M, Jiang BH, Liu X, Guo DA
Cancer Sci Early Edition: published 2008 Apr 16
Comprehensive proteome analysis of mouse liver by ampholyte-free liquid-phase isoelectric focusing
Zhong H, Yun D, Zhang C, Yang P, Fan H, He F.
Electrophoresis Early Edition: published 29-Apr-2008
Comparative proteomics analysis of male and female Persian sturgeon (Acipenser persicus) gonads
Keyvanshokooh S, Kalbassi MR, Hosseinkhani S, Vaziri B.
Anim Reprod Sci Early Edition: published 20-Mar-2008
The mouse sperm proteome characterized via IPG strip prefractionation and LC-MS/MS identification
Mark A. Baker, Louise Hetherington, Gabi M. Reeves, R. John Aitken
PROTEOMICS (2008) 8(8): 1720-1730
Chilling stress-induced proteomic changes in rice roots
Lee DG, Ahsan N, Lee SH, Lee JJ, Bahk JD, Kang KY, Lee BH
J Plant Physiol Early Edition: published 2008 Apr 21
A proteome map of the zebrafish (Danio rerio) lens reveals similarities between zebrafish and mammalian crystallin expression
Posner M, Hawke M, Lacava C, Prince CJ, Bellanco NR, Corbin RW.
Mol Vis (2008) 14: 806-14.
Transfusion medicine in the era of proteomics
Giancarlo Liumbruno, Gian Maria D'Amici, Giuliano Grazzini, Lello Zolla
Journal of Proteomics (2008) 71(1): 34-45
Identification of a novel storage glycine-rich peptide from guava (Psidium guajava) seeds with activity against Gram-negative bacteria
Pelegrini PB, Murad AM, Silva LP, Dos Santos RC, Costa FT, Tagliari PD, Bloch Jr C, Noronha EF, Miller RN, Franco OL.
Peptides Early Edition: published 22-Mar-2008
A flax fibre proteome: identification of proteins enriched in bast fibres
Hotte NS, Deyholos MK.
BMC Plant Biol (2008) 8(1): 52
Differential soluble protein expression between Trichomonas vaginalis isolates exhibiting low and high virulence phenotypes
Patrícia Cuervo, Elisa Cupolillo, Constança Britto, Luis Javier González, Fernando Costa e Silva-Filho, Letícia Coutinho Lopes, Gilberto Barbosa Domont, Jose Batista De Jesus
Journal of Proteomics (2008) 71(1): 109-122
Vascular endothelial growth factor induces heat shock protein (HSP) 27 serine 82 phosphorylation and endothelial tubulogenesis via protein kinase D and independent of p38 kinase
Evans IM, Britton G, Zachary IC.
Cell Signal Early Edition: published 18-Mar-2008
HIP2: An Online Database of Human Plasma Proteins from Healthy Individuals
Saha S, Harrison SH, Shen C, Tang H, Radivojac P, Arnold RJ, Zhang X, Chen JY.
BMC Med Genomics (2008) 1(1): 12
Proteomic analysis of the winter-protected phenotype of hibernating ground squirrel intestine
Martin SL, Epperson LE, Rose JC, Kurtz CC, Ane C, Carey HV
Am J Physiol Regul Integr Comp Physiol Early Edition: published 2008 Apr 23
Tityus serrulatus Hypotensins: A new family of peptides from scorpion venom
Verano-Braga T, Rocha-Resende C, Silva DM, Ianzer D, Martin-Eauclaire MF, Bougis PE, de Lima ME, Santos RA, Pimenta AM.
Biochem Biophys Res Commun Early Edition: published 26-Apr-2008
Variability of polymorphic families of three types of xylanase inhibitors in the wheat grain proteome
Evi Croes, Kurt Gebruers, Johan Robben, Jean-Paul Noben, Bart Samyn, Griet Debyser, Jozef Van Beeumen, Jan A. Delcour, Christophe M. Courtin
PROTEOMICS (2008) 8(8): 1692-1705
Application of 16O/18O reverse proteolytic labeling to determine the effect of biofilm culture on the cell envelope proteome of Porphyromonas gingivalis W50
Ching-Seng Ang, Paul D. Veith, Stuart G. Dashper, Eric C. Reynolds
PROTEOMICS (2008) 8(8): 1645-1660
Protein expression profile of Gluconacetobacter diazotrophicus PAL5, a sugarcane endophytic plant growth-promoting bacterium
Leticia M. S. Lery, Ana Coelho, Wanda M. A. von Kruger, Mayla S. M. Gonçalves, Marise F. Santos, Richard H. Valente, Eidy O. Santos, Surza L. G. Rocha, Jonas Perales, Gilberto B. Domont, Katia R. S. Teixeira, Paulo M. Bisch
PROTEOMICS (2008) 8(8): 1631-1644
Proteomic analysis of Staphylococcus aureus biofilms grown in vitro on mechanical heart valve leaflets
Bénard L, Litzler PY, Cosette P, Lemeland JF, Jouenne T, Junter GA.
J Biomed Mater Res A Early Edition: published 10-Apr-2008
Monitoring of transcriptome and proteome profiles to investigate the cellular response of E. coli towards recombinant protein expression under defined chemostat conditions
Dürrschmid K, Reischer H, Schmidt-Heck W, Hrebicek T, Guthke R, Rizzi A, Bayer K.
J Biotechnol Early Edition: published 4-Mar-2008
Proteomic analysis of triclosan resistance in Salmonella enterica serovar Typhimurium
Webber MA, Coldham NG, Woodward MJ, Piddock LJ.
J Antimicrob Chemother Early Edition: published 3-Apr-2008
Analysis of the Actinobacillus pleuropneumoniae ArcA regulon identifies fumarate reductase as a determinant of virulence
Buettner FF, Bendallah IM, Bosse JT, Dreckmann K, Nash JH, Langford PR, Gerlach GF.
Infect Immun Early Edition: published 31-Mar-2008
Determination and Comparison of the Francisella tularensis subsp.novicida U112 Proteome to Other Bacterial Proteomes
Laurence Rohmer, Tina Guina, Jinzhi Chen, Byron Gallis, Greg K. Taylor, Scott A. Shaffer, Samuel I. Miller, Mitchell J. Brittnacher, and David R. Goodlett
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2016-2024
Structure of the Cytoskeleton of Spiroplasma melliferum BC3 and Its Interactions with the Cell Membrane
Trachtenberg S, Dorward LM, Speransky VV, Jaffe H, Andrews SB, Leapman RD.
J Mol Biol Early Edition: published 20-Feb-2008
Proteomic investigation of the adaptation of Lactococcus lactis to the mouse digestive tract
Karine Roy, Mickaël Meyrand, Gérard Corthier, Véronique Monnet, Michel-Yves Mistou
PROTEOMICS (2008) 8(8): 1661-1676
Immunoproteomic Identification and Serological Responses to Novel Chlamydia pneumoniae Antigens That Are Associated with Persistent C. pneumoniae Infections
Bunk S, Susnea I, Rupp J, Summersgill JT, Maass M, Stegmann W, Schrattenholz A, Wendel A, Przybylski M, Hermann C.
J Immunol (2008) 180(8): 5490-8
The effect of low pH on protein expression by the probiotic bacterium Lactobacillus reuteri
KiBeom Lee, Hong-Gu Lee, KyungBae Pi, Yun-Jaie Choi
PROTEOMICS (2008) 8(8): 1624-1630
Isolation of soluble proteins from an industrial strain Streptomyces avermitilis in complex culture medium for two-dimensional gel electrophoresis
Yin P, Wang YH, Zhang SL, Chu J, Zhuang YP, Wang ML, Zhou J.
J Microbiol Methods Early Edition: published 23-Feb-2008
Overproduction or Absence of the Periplasmic Protease DegP Severely Compromises Bacterial Growth in the Absence of the Dithiol: Disulfide Oxidoreductase DsbA
Ozlem Onder, Serdar Turkarslan, David Sun, and Fevzi Daldal
Mol Cell Proteomics (2008) 7(5): 875-890
Proteomics in gram-negative bacterial outer membrane vesicles
Lee EY, Choi DS, Kim KP, Gho YS
Mass Spectrom Rev Early Edition: published 2008 Apr 17
Proteomic signatures uncover thiol-specific electrophile resistance mechanisms in Bacillus subtilis
Haike Antelmann, Michael Hecker, and Peter Zuber
Expert Review of Proteomics (2008) 5(1): 77-90
Selectivity of bacterial proteome fractionation based on differential solubility: A mass spectrometry evaluation
Ramos Y, GarcÃa Y, Llopiz A, Castellanos-Serra L.
Anal Biochem Early Edition: published 22-Mar-2008
Proteomics with a pinch of salt: a cyanobacterial perspective
Pandhal J, Wright PC, Biggs CA.
Saline Systems (2008) 4(1): 1
Proteomic analysis of Haloferax volcanii reveals salinity-mediated regulation of the stress response protein PspA
Bidle KA, Kirkland PA, Nannen JL, Maupin-Furlow JA.
Microbiology (2008) 154(Pt 5): 1436-43
Detailed proteome analysis of growing cells of the planctomycete Rhodopirellula baltica SH1T
Cao Xuan Hieu, Birgit Voigt, Dirk Albrecht, Dörte Becher, Thierry Lombardot, Frank Oliver Glöckner, Rudolf Amann, Michael Hecker, Thomas Schweder
PROTEOMICS (2008) 8(8): 1608-1623
Exploring the uremic toxins using proteomic technologies
Schiffer E, Mischak H, Vanholder RC.
Contrib Nephrol (2008) 160: 159-71
Proteomics Characterization of the Cytotoxicity Mechanism of Ganoderic Acid D and Computer-automated Estimation of the Possible Drug Target Network
Qing-Xi Yue, Zhi-Wei Cao, Shu-Hong Guan, Xiao-Hui Liu, Lin Tao, Wan-Ying Wu, Yi-Xue Li, Peng-Yuan Yang, Xuan Liu, and De-An Guo
Mol Cell Proteomics (2008) 7(5): 949-961
Effects of oxidative stress on protein thiols and disulphides in Mytilus edulis revealed by proteomics: Actin and protein disulphide isomerase are redox targets
McDonagh B, Sheehan D.
Mar Environ Res Early Edition: published 29-Feb-2008
Interdisciplinary study for the evaluation of biochemical alterations on mussel Mytilus galloprovincialis exposed to a tributyltin-polluted area
Magi E, Liscio C, Pistarino E, Santamaria B, Di Carro M, Tiso M, Scaloni A, Renzone G, Cosulich ME.
Anal Bioanal Chem Early Edition: published 10-Apr-2008
Interaction of Ganoderma triterpenes with doxorubicin and proteomic characterization of the possible molecular targets of Ganoderma triterpenes
Yue QX, Xie FB, Guan SH, Ma C, Yang M, Jiang BH, Liu X, Guo DA
Cancer Sci Early Edition: published 2008 Apr 16
Snake venomics of the South and Central American Bushmasters. Comparison of the toxin composition of Lachesis muta gathered from proteomic versus transcriptomic analysis
Libia Sanz, José Escolano, Massimo Ferretti, Mirtha J. Biscoglio, Elena Rivera, Ernesto J. Crescenti, Yamileth Angulo, Bruno Lomonte, José María Gutiérrez, Juan J. Calvete
Journal of Proteomics (2008) 71(1): 46-60
Gold nanoparticles and oxidative stress in Mytilus edulis
Tedesco S, Doyle H, Redmond G, Sheehan D.
Mar Environ Res Early Edition: published 26-Feb-2008
Ubiquitination and carbonylation as markers of oxidative-stress in Ruditapes decussatus
Chora S, McDonagh B, Sheehan D, Starita-Geribaldi M, Roméo M, Bebianno MJ.
Mar Environ Res Early Edition: published 26-Feb-2008
The rat red blood cell proteome is altered by priming with 2-butoxyethanol
Palkar PS, Kakhniashvili DG, Goodman SR, Mehendale HM
Toxicol Appl Pharmacol Early Edition: published 2008 Mar 15
Proteomic biomarkers for prenatal bisphenol A: Exposure in mouse immune organs
Yang M, Lee HS, Pyo MY.
Environ Mol Mutagen Early Edition: published 16-Apr-2008
Proteomic Analysis of Apoptosis Induced by Xanthoangelol, a Major Constituent of Angelica keiskei, in Neuroblastoma
Motani K, Tabata K, Kimura Y, Okano S, Shibata Y, Abiko Y, Nagai H, Akihisa T, Suzuki T.
Biol Pharm Bull (2008) 31(4): 618-26
Serum Proteomic Profiling Associated with Immune System Impaired by Stress Using ProteinChip Technology
Hui L, Diandong H, Baoxia Z, Da W, Hong Y, Xiaoyi W
Neuroimmunomodulation (2008) 14(6): 326-330
A Concentration-Dependent Analysis Method for High Density Protein Microarrays
Ovidiu Marina, Melinda A. Biernacki, Vladimir Brusic, and Catherine J. Wu
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2059-2068
Nitrosative protein tyrosine modifications: biochemistry and functional significance
Yeo WS, Lee SJ, Lee JR, Kim KP.
BMB Rep (2008) 41(3): 194-203
Contact spotting of protein microarrays coupled with spike-in of normalizer protein permits time-resolved analysis of ERBB receptor signaling
Christian Löbke, Mark Laible, Claudia Rappl, Markus Ruschhaupt, Özgür Sahin, Dorit Arlt, Stefan Wiemann, Annemarie Poustka, Holger Sültmann, Ulrike Korf
PROTEOMICS (2008) 8(8): 1586-1594
Monomeric Calgranulins Measured by SELDI-TOF Mass Spectrometry and Calprotectin Measured by ELISA as Biomarkers in Arthritis
de Seny D, Fillet M, Ribbens C, Maree R, Meuwis MA, Lutteri L, Chapelle JP, Wehenkel L, Louis E, Merville MP, Malaise M
Clin Chem Early Edition: published 2008 Apr 24
Application of Protein Microarrays for Multiplexed Detection of Antibodies to Tumor Antigens in Breast Cancer
Karen S. Anderson, Niroshan Ramachandran, Jessica Wong, Jacob V. Raphael, Eugenie Hainsworth, Gokhan Demirkan, Daniel Cramer, Dina Aronzon, F. Stephen Hodi, Lyndsay Harris, Tanya Logvinenko, and Joshua LaBaer
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1490-1499
Detection and analysis of protein-protein interactions of organellar and prokaryotic proteomes by blue native and colorless native gel electrophoresis
Krause F, Seelert H
Curr Protoc Protein Sci (2008) Chapter 14: Unit 14.11
Plasma Glycoprotein Profiling for Colorectal Cancer Biomarker Identification by Lectin Glycoarray and Lectin Blot
Yinghua Qiu, Tasneem H. Patwa, Li Xu, Kerby Shedden, David E. Misek, Missy Tuck, Gracie Jin, Mack T. Ruffin, Danielle K. Turgeon, Sapna Synal, Robert Bresalier, Norman Marcon, Dean E. Brenner, and David M. Lubman
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1693-1703
Identifying autoantigens as theranostic targets: Antigen arrays and immunoproteomics approaches
Tassinari OW, Caiazzo RJ Jr, Ehrlich JR, Liu BC.
Curr Opin Mol Ther (2008) 10(2): 107-15
Ubiquitin proteolytic system: focus on SUMO
Van G Wilson and Phillip R Heaton
Expert Review of Proteomics (2008) 5(1): 121-135
Advances in the Analysis of Protein Phosphorylation
Alberto Paradela and Juan Pablo Albar
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1809-1818
Improved enrichment strategies for phosphorylated peptides on titanium dioxide using methyl esterification and pH gradient elution
Simon ES, Young M, Chan A, Bao ZQ, Andrews PC.
Anal Biochem Early Edition: published 22-Mar-2008
Detecting nitrated proteins by proteomic technologies
Butt YK, Lo SC
Methods Enzymol (2008) 440: 17-31
Systematic Approach for Validating the Ubiquitinated Proteome
Seyfried NT, Xu P, Duong DM, Cheng D, Hanfelt J, Peng J
Anal Chem Early Edition: published 2008 Apr 24
AQP1 expression analysis in human diseases: implications for proteomic characterization
Fulvio Magni, Clizia Chinello, Francesca Raimondo, Paolo Mocarelli, Marzia Galli Kienle, and Marina Pitto
Expert Review of Proteomics (2008) 5(1): 29-44
Maximizing Coverage of Glycosylation Heterogeneity in MALDI-MS Analysis of Glycoproteins with Up to 27 Glycosylation Sites
Ying Zhang, Eden P. Go, and Heather Desaire
ANALYTICAL CHEMISTRY (2008) 80(9): 3144-3158
GlycoBase and autoGU: tools for HPLC-based glycan analysis
Matthew P. Campbell, Louise Royle, Catherine M. Radcliffe, Raymond A. Dwek, and Pauline M. Rudd
Bioinformatics (2008) 24(9): 1214-1216
Involvement of post-translational modification of neuronal plasticity-related proteins in hyperalgesia revealed by a proteomic analysis
Hiroki Fujisawa, Ritsuko Ohtani-Kaneko, Mitsuru Naiki, Tomoyuki Okada, Kayo Masuko, Kazuo Yudoh, Naoya Suematsu, Kazuki Okamoto, Kusuki Nishioka, Tomohiro Kato
PROTEOMICS (2008) 8(8): 1706-1719
Proteomics and Glycomics Analyses of N-Glycosylated Structures Involved in Toxoplasma gondii-Host Cell Interactions
Sylvain Fauquenoy, Willy Morelle, Agnes Hovasse, Audrey Bednarczyk, Christian Slomianny, Christine Schaeffer, Alain Van Dorsselaer, and Stanislas Tomavo
Mol Cell Proteomics (2008) 7(5): 891-910
The Reductive Desulfurization of Met and Cys Residues in Bovine RNase A Is Associated with trans Lipids Formation in a Mimetic Model of Biological Membranes
Carla Ferreri, Chryssostomos Chatgilialoglu, Armida Torreggiani, Anna Maria Salzano, Giovanni Renzone, and Andrea Scaloni
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2007-2015
The dicarbonyl proteome: proteins susceptible to dicarbonyl glycation at functional sites in health, aging, and disease
Rabbani N, Thornalley PJ.
Ann N Y Acad Sci (2008) 1126: 124-7.
Different phosphorylation states of the anaphase promoting complex in response to antimitotic drugs: a quantitative proteomic analysis
Steen JA, Steen H, Georgi A, Parker K, Springer M, Kirchner M, Hamprecht F, Kirschner MW
Proc Natl Acad Sci U S A (2008) 105(16): 6069-74
Targets of Tyrosine Nitration in Diabetic Rat Retina
Xianquan Zhan, Yunpeng Du, John S. Crabb, Xiaorong Gu, Timothy S. Kern, andJohn W. Crabb
Mol Cell Proteomics (2008) 7(5): 864-874
Sorting signals, N-terminal modifications and abundance of the chloroplast proteome
Zybailov B, Rutschow H, Friso G, Rudella A, Emanuelsson O, Sun Q, van Wijk KJ
PLoS ONE (2008) 3(4): e1994
Chip-Based Enrichment and NanoLC−MS/MS Analysis of Phosphopeptides from Whole Lysates
Shabaz Mohammed, Karsten Kraiczek, Martijn W. H. Pinkse, Simone Lemeer, Joris J. Benschop, and Albert J. R. Heck
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1565-1571
Development of an Electrochemical Oxidation Method for Probing Higher Order Protein Structure with Mass Spectrometry
Carlee McClintock, Vilmos Kertesz, and Robert L. Hettich
ANALYTICAL CHEMISTRY (2008) 80(9): 3304-3317
THOC5 spliceosome protein: a target for leukaemogenic tyrosine kinases that affects inositol lipid turnover
Pierce A, Carney L, Hamza HG, Griffiths JR, Zhang L, Whetton BA, Gonzalez Sanchez MB, Tamura T, Sternberg D, Whetton AD.
Br J Haematol Early Edition: published 27-Mar-2008
Crosstalk Between GlcNAcylation and Phosphorylation: Roles in Insulin Resistance and Glucose Toxicity
Copeland RJ, Bullen Jr JW, Hart GW.
Am J Physiol Endocrinol Metab Early Edition: published 29-Apr-2008
Straightforward ladder sequencing of peptides using a Lys-N metalloendopeptidase
Taouatas N, Drugan MM, Heck AJ, Mohammed S
Nat Methods Early Edition: published 2008 Apr 20
Glycosylation Site-Specific Analysis of HIV Envelope Proteins (JR-FL and CON-S) Reveals Major Differences in Glycosylation Site Occupancy, Glycoform Profiles, and Antigenic Epitopesʼ Accessibility
Eden P. Go, Janet Irungu, Ying Zhang, Dilusha S. Dalpathado, Hua-Xin Liao, Laura L. Sutherland, S. Munir Alam, Barton F. Haynes, and Heather Desaire
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1660-1674
Cerium Ion-Chelated Magnetic Silica Microspheres for Enrichment and Direct Determination of Phosphopeptides by Matrix-Assisted Laser Desorption Ionization Mass Spectrometry
Yan Li, Dawei Qi, Chunhui Deng, Pengyuan Yang, and Xiangmin Zhang
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1767-1777
Online Automated in Vivo Zebrafish Phosphoproteomics: From Large-Scale Analysis Down to a Single Embryo
Simone Lemeer, Martijn W. H. Pinkse, Shabaz Mohammed, Bas van Breukelen, Jeroen den Hertog, Monique Slijper, and Albert J. R. Heck
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1555-1564
Mass spectrometric characterization of proteins modified by nitric oxide-derived species
Salzano AM, D'Ambrosio C, Scaloni A
Methods Enzymol (2008) 440: 3-15
Combined Enzymatic and Data Mining Approaches for Comprehensive Phosphoproteome Analyses: Application to Cell Signaling Events of Interferon-{gamma}-Stimulated Macrophages
Maria Marcantonio, Matthias Trost, Mathieu Courcelles, Michel Desjardins, and Pierre Thibault
Mol Cell Proteomics (2008) 7(4): 645-660
Phosphoproteome Analysis of Drosophila melanogaster Embryos
Bo Zhai, Judit Villén, Sean A. Beausoleil, Julian Mintseris, and Steven P. Gygi
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1675-1682
Epinephrine Increases Phosphorylation of MAP-2c in Rat Pheochromocytoma Cells (PC12 Cells) via a Protein Kinase C- and Mitogen Activated Protein Kinase-Dependent Mechanism
Lu Tie, Jian-Zhao Zhang, Yan-Hua Lin, Tian-Hao Su, Yu-Hua Li, Hong-Li Wu, You-Yi Zhang, He-Ming Yu, and Xue-Jun Li
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1704-1711
A multi-angular mass spectrometric view at cyclic nucleotide dependent protein kinases: In vivo characterization and structure/function relationships
Scholten A, Aye TT, Heck AJ.
Mass Spectrom Rev Early Edition: published 31-Mar-2008
Large-scale identification of novel mitosis-specific phosphoproteins
Xiang M, Xue C, Huicai L, Dacheng H.
Biochim Biophys Acta Early Edition: published 4-Mar-2008
Detection of Post-translational Modifications by Fluorescent Staining of Two-Dimensional Gels
Jacob AM, Turck CW.
Methods Mol Biol (2008) 446: 21-32
Heteroatom(isotope)-tagged proteomics via ICP-MS: screening and quantification of proteins and their post-translational modifications
Sanz-Medel A
Anal Bioanal Chem Early Edition: published 2008 Apr 22
Detection and proteomic identification of s-nitrosated proteins in human hepatocytes
Lopez-Sanchez LM, Corrales FJ, De La Mata M, Muntane J, Rodriguez-Ariza A
Methods Enzymol (2008) 440: 273-81
Characterization of Site-specific N-Glycosylation
Medzihradszky KF.
Methods Mol Biol (2008) 446: 293-316
Hydrophilic Interaction Chromatography Reduces the Complexity of the Phosphoproteome and Improves Global Phosphopeptide Isolation and Detection
Dean E. McNulty and Roland S. Annan
Mol Cell Proteomics (2008) 7(5): 971-980
Automatic Validation of Phosphopeptide Identifications by the MS2/MS3 Target-Decoy Search Strategy
Xinning Jiang, Guanghui Han, Shun Feng, Xiaogang Jiang, Mingliang Ye, Xuebiao Yao, and Hanfa Zou
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1640-1649
Ubiquitination and carbonylation as markers of oxidative-stress in Ruditapes decussatus
Chora S, McDonagh B, Sheehan D, Starita-Geribaldi M, Roméo M, Bebianno MJ.
Mar Environ Res Early Edition: published 26-Feb-2008
Quantitative Analysis of Synaptic Phosphorylation and Protein Expression
Jonathan C. Trinidad, Agnes Thalhammer, Christian G. Specht, Aenoch J.Lynn, Peter R. Baker, Ralf Schoepfer, and Alma L. Burlingame
Mol Cell Proteomics (2008) 7(4): 684-696
Recent developments in mass spectrometry-based quantitative phosphoproteomics
Smith JC, Figeys D.
Biochem Cell Biol (2008) 86(2): 137-48
Oxidative stress and covalent modification of protein with bioactive aldehydes
Grimsrud PA, Xie H, Griffin TJ, Bernlohr DA.
J Biol Chem Early Edition: published 29-Apr-2008
SIMAC (Sequential Elution from IMAC), a Phosphoproteomics Strategy for the Rapid Separation of Monophosphorylated from Multiply Phosphorylated Peptides
Tine E. Thingholm, Ole N. Jensen, Phillip J. Robinson, and Martin R. Larsen
Mol Cell Proteomics (2008) 7(4): 661-671
Evaluation of proteomic strategies for analyzing ubiquitinated proteins
Peng J.
BMB Rep (2008) 41(3): 177-83
Motif-Specific Sampling of Phosphoproteomes
Cristian I. Ruse, Daniel B. McClatchy, Bingwen Lu, Daniel Cociorva, Akira Motoyama, Sung Kyu Park, and John R. Yates III
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2140-2150
Chemical approaches to mapping the function of post-translational modifications
Gamblin DP, van Kasteren SI, Chalker JM, Davis BG.
FEBS J Early Edition: published 1-Apr-2008
Proteomic Profiling of Nonenzymatically Glycated Proteins in Human Plasma and Erythrocyte Membranes
Qibin Zhang, Ning Tang, Athena A. Schepmoes, Lawrence S. Phillips, Richard D. Smith, and Thomas O. Metz
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 2025-2032
Rapidly Alternating Transmission Mode Electron-Transfer Dissociation and Collisional Activation for the Characterization of Polypeptide Ions
Hongling Han, Yu Xia, Min Yang, and Scott A. McLuckey
ANALYTICAL CHEMISTRY (2008) 80(9): 3492-3497
Plasma Glycoprotein Profiling for Colorectal Cancer Biomarker Identification by Lectin Glycoarray and Lectin Blot
Yinghua Qiu, Tasneem H. Patwa, Li Xu, Kerby Shedden, David E. Misek, Missy Tuck, Gracie Jin, Mack T. Ruffin, Danielle K. Turgeon, Sapna Synal, Robert Bresalier, Norman Marcon, Dean E. Brenner, and David M. Lubman
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1693-1703
Determination of Stoichiometry and Conformational Changes in the First Step of the P22 Tail Assembly
Lorenzen K, Olia AS, Uetrecht C, Cingolani G, Heck AJ.
J Mol Biol Early Edition: published 15-Feb-2008
Mapping the Integrin-Linked Kinase Interactome Using SILAC
Iveta Dobreva, Andrew Fielding, Leonard J. Foster, and Shoukat Dedhar
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1740-1749
Identification of dominant signaling pathways from proteomics expression data
Roman A. Zubarev, Michael L. Nielsen, Eva M. Fung, Mikhail M. Savitski, Olga Kel-Margoulis, Edgar Wingender, Alexander Kel
Journal of Proteomics (2008) 71(1): 89-96
Identification of cognate host targets and specific ubiquitylation sites on the Salmonella SPI-1 effector SopB/SigD
Lindsay D. Rogers, Anders R. Kristensen, Erin C. Boyle, Dale P. Robinson, Richard T. Ly, B. Brett Finlay, Leonard J. Foster
Journal of Proteomics (2008) 71(1): 97-108
Using support vector machine combined with auto covariance to predict protein-protein interactions from protein sequences
Guo Y, Yu L, Wen Z, Li M.
Nucleic Acids Res Early Edition: published 4-Apr-2008
Mass spectrometric quantification of asparagine synthetase in circulating leukemia cells from acute lymphoblastic leukemia patients
Susan E. Abbatiello, Yuan-Xiang Pan, Mi Zhou, Alan S. Wayne, Timothy D. Veenstra, Stephen P. Hunger, Michael S. Kilberg, John R. Eyler, Nigel G.J. Richards, Thomas P. Conrads
Journal of Proteomics (2008) 71(1): 61-70
Combinatorial modification of human histone H4 quantitated by two-dimensional liquid chromatography coupled with top down mass spectrometry
Pesavento JJ, Bullock CR, Leduc RD, Mizzen CA, Kelleher NL.
J Biol Chem Early Edition: published 1-Apr-2008
Large-scale purification of latex bead phagosomes from mouse macrophage cell lines and subsequent preparation for high-throughput quantitative proteomics
Rupper A, Cardelli J
Methods Mol Biol (2008) 445: 339-51
New Insight into Stimulus-Induced Plasticity of the Olfactory Epithelium in Mus musculus by Quantitative Proteomics
Jon Barbour, Eva M. Neuhaus, Heike Piechura, Nadine Stoepel, Anastasia Mashukova, Daniela Brunert, Barbara Sitek, Kai Stühler, Helmut E. Meyer, Hanns Hatt, and Bettina Warscheid
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1594-1605
Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) and Proteome Quantitation of Mouse Embryonic Stem Cells to a Depth of 5,111 Proteins
Johannes Graumann, Nina C. Hubner, Jeong Beom Kim, Kinarm Ko, Markus Moser, Chanchal Kumar, Jurgen Cox, Hans Scholer, and Matthias Mann
Mol Cell Proteomics (2008) 7(4): 672-683
Relative Protein Quantification by Isobaric SILAC with Immonium Ion Splitting (ISIS)
Mara Colzani, Frederic Schutz, Alexandra Potts, Patrice Waridel, and Manfredo Quadroni
Mol Cell Proteomics (2008) 7(5): 927-937
Comparative Evaluation of Current Peptide Production Platforms Used in Absolute Quantification in Proteomics
Hamid Mirzaei, Joshua K. McBee, Julian Watts, and Ruedi Aebersold
Mol Cell Proteomics (2008) 7(4): 813-823
The Effect of 24S-Hydroxycholesterol on Cholesterol Homeostasis in Neurons: Quantitative Changes to the Cortical Neuron Proteome
Yuqin Wang, Sabina Muneton, Jan Sjövall, Jasmina N. Jovanovic, and William J. Griffiths
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1606-1614
Progress of Drug Transport Study Based on Absolute Quantitative Method for Membrane Transporter Proteins
Kamiie J.
Yakugaku Zasshi (2008) 128(4): 507-512
Quantitative Shotgun Proteomics of Enriched Heterocysts from Nostoc sp. PCC 7120 Using 8-Plex Isobaric Peptide Tags
Saw Yen Ow, Tanai Cardona, Arnaud Taton, Ann Magnuson, Peter Lindblad, Karin Stensjö, and Phillip C. Wright
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1615-1628
Quantitative Analysis of Surface Plasma Membrane Proteins of Primary and Metastatic Melanoma Cells
Haibo Qiu and Yinsheng Wang
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1904-1915
Quantitative proteome mapping of nitrotyrosines
Bigelow DJ, Qian WJ
Methods Enzymol (2008) 440: 191-205
Ultra Performance Liquid Chromatography Isotope Dilution Tandem Mass Spectrometry for the Absolute Quantification of Proteins and Peptides
Leah G. Luna, Tracie. L. Williams, James L. Pirkle, and John R. Barr
ANALYTICAL CHEMISTRY (2008) 80(8): 2688-2693
Eight-channel iTRAQ Enables Comparison of the Activity of Six Leukemogenic Tyrosine Kinases
Andrew Pierce, Richard D. Unwin, Caroline A. Evans, Stephen Griffiths, Louise Carney, Liqun Zhang, Ewa Jaworska, Chia-Fang Lee, David Blinco, Michal J. Okoniewski, Crispin J. Miller, Danny A. Bitton, Elaine Spooncer, and Anthony D. Whetton
Mol Cell Proteomics (2008) 7(5): 853-863
Quantitative Proteomics Analysis of the Effects of Ionizing Radiation in Wild Type and p53K317R Knock-in Mouse Thymocytes
Lisa M. Miller Jenkins, Sharlyn J. Mazur, Matteo Rossi, Olga Gaidarenko, Yang Xu, and Ettore Appella
Mol Cell Proteomics (2008) 7(4): 716-727
ANIBAL, Stable Isotope-based Quantitative Proteomics by Aniline and Benzoic Acid Labeling of Amino and Carboxylic Groups
Alexandre Panchaud, Jenny Hansson, Michael Affolter, Rachid Bel Rhlid,Stephane Piu, Philippe Moreillon, and Martin Kussmann
Mol Cell Proteomics (2008) 7(4): 800-812
MASIC: A software program for fast quantitation and flexible visualization of chromatographic profiles from detected LC-MS(/MS) features
Monroe ME, Shaw JL, Daly DS, Adkins JN, Smith RD.
Comput Biol Chem Early Edition: published 26-Feb-2008
Native-DIGE: A new look at the mitochondrial membrane proteome
Dani D, Dencher NA.
Biotechnol J Early Edition: published 30-Apr-2008
A “Tagless” Strategy for Identification of Stable Protein Complexes Genome-wide by Multidimensional Orthogonal Chromatographic Separation and iTRAQ Reagent Tracking
Ming Dong, Lee Lisheng Yang, Katherine Williams, Susan J. Fisher, Steven C. Hall, Mark D. Biggin, Jian Jin, and H. Ewa Witkowska
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1836-1849
Changes in the two-dimensional proteome of the soluble fraction of nuclear proteins from Lepidium sativum root meristematic cells grown under clinorotation
Sobol MA, González-Camacho F, Kordyum EL, Medina FJ.
J Gravit Physiol (2007) 14(1): P109-10
Quantitative Analysis of Snake Venoms Using Soluble Polymer-based Isotope Labeling
Jacob A. Galan, Minjie Guo, Elda E. Sanchez, Esteban Cantu, Alexis Rodriguez-Acosta, John C. Perez, and W. Andy Tao
Mol Cell Proteomics (2008) 7(4): 785-799
Heteroatom(isotope)-tagged proteomics via ICP-MS: screening and quantification of proteins and their post-translational modifications
Sanz-Medel A
Anal Bioanal Chem Early Edition: published 2008 Apr 22
Changes in endoplasmic reticulum stress proteins and aldolase A in cells exposed to dopamine
Dukes AA, Van Laar VS, Cascio M, Hastings TG.
J Neurochem Early Edition: published 1-Apr-2008
Protein Quantification by Isotope Dilution Mass Spectrometry of Proteolytic Fragments: Cleavage Rate and Accuracy
Arsene CG, Ohlendorf R, Burkitt W, Pritchard C, Henrion A, O'Connor G, Bunk DM, Güttler B.
Anal Chem Early Edition: published 30-Apr-2008
Identification of cognate host targets and specific ubiquitylation sites on the Salmonella SPI-1 effector SopB/SigD
Lindsay D. Rogers, Anders R. Kristensen, Erin C. Boyle, Dale P. Robinson, Richard T. Ly, B. Brett Finlay, Leonard J. Foster
Journal of Proteomics (2008) 71(1): 97-108
Experimental and computational approaches to quantitative proteomics: Status quo and outlook
Alexandre Panchaud, Michael Affolter, Philippe Moreillon, Martin Kussmann
Journal of Proteomics (2008) 71(1): 19-33
Proteomic identification of cellular protease substrates using isobaric tags for relative and absolute quantification (iTRAQ)
Dean RA, Smith D, Overall CM
Curr Protoc Protein Sci (2007) Chapter 21: Unit 21.18
Strategy combining separation of isotope-labeled unfolded proteins and matrix-assisted laser desorption/ionization mass spectrometry analysis enables quantification of a wide range of serum proteins
Liao WL, Turko IV.
Anal Biochem Early Edition: published 15-Mar-2008
Characterization of Anaerobic Catabolism of p-Coumarate in Rhodopseudomonas palustris by Integrating Transcriptomics and Quantitative Proteomics
Chongle Pan, Yasuhiro Oda, Patricia K. Lankford, Bing Zhang, Nagiza F. Samatova, Dale A. Pelletier, Caroline S. Harwood, and Robert L. Hettich
Mol Cell Proteomics (2008) 7(5): 938-948
Synthesis and Proteomic Activity Evaluation of a new Isotope-Coded Affinity Tagging (ICAT) Reagent
Guaragna A, Amoresano A, Pinto V, Monti G, Mastrobuoni G, Marino G.
Bioconjug Chem Early Edition: published 12-Apr-2008
Clinical proteomics and breast cancer: strategies for diagnostic and therapeutic biomarker discovery
Bertucci F, Goncalves A.
Future Oncol (2008) 4(2): 271-87
Experimental and computational approaches to quantitative proteomics: Status quo and outlook
Alexandre Panchaud, Michael Affolter, Philippe Moreillon, Martin Kussmann
Journal of Proteomics (2008) 71(1): 19-33
Mapping of fruit allergens by 2D electrophoresis and immunodetection
Gorji Marzban, Anita Herndl, Fatemeh Maghuly, Hermann Katinger, and Margit Laimer
Expert Review of Proteomics (2008) 5(1): 61-75
Transfusion medicine in the era of proteomics
Giancarlo Liumbruno, Gian Maria D'Amici, Giuliano Grazzini, Lello Zolla
Journal of Proteomics (2008) 71(1): 34-45
Developing Antibacterial Vaccines in Genomics and Proteomics Era
Kaushik DK, Sehgal D.
Scand J Immunol Early Edition: published 4-Apr-2008
Analysis of proteins by capillary electrophoresis
Huck CW, Bonn GK.
Methods Mol Biol (2008) 384: 507-40
Evaluation of proteomic strategies for analyzing ubiquitinated proteins
Peng J.
BMB Rep (2008) 41(3): 177-83
Overview of tandem mass spectrometry (MS/MS) database search algorithms
Kapp E, Schutz F
Curr Protoc Protein Sci (2007) Chapter 25: Unit25.2
Elucidation of lipoprotein particles structure by proteomic analysis
Tonino Alonzi, Carmine Mancone, Laura Amicone, and Marco Tripodi
Expert Review of Proteomics (2008) 5(1): 91-104
Proteomic approaches for the study of cell signaling in the renal collecting duct
Hoorn EJ, Pisitkun T, Yu MJ, Knepper MA.
Contrib Nephrol (2008) 160: 172-85
Profiling techniques in nutrition and health research
Kussmann M, Rezzi S, Daniel H.
Curr Opin Biotechnol Early Edition: published 28-Mar-2008
Advances in the Analysis of Protein Phosphorylation
Alberto Paradela and Juan Pablo Albar
JOURNAL OF PROTEOME RESEARCH (2008) 7(05): 1809-1818
Overview of kidney and urine proteome databases
Yoshida Y, Miyamoto M, Bo X, Yaoita E, Yamamoto T.
Contrib Nephrol (2008) 160: 186-97
Improving image analysis in 2DGE-based redox proteomics by labeling protein carbonyl with fluorescent hydroxylamine
Poon HF, Abdullah L, Reed J, Doore SM, Laird C, Mathura V, Mullan M, Crawford F.
Biol Proced Online (2007) 9: 65-72.
Ovarian cancer in the proteomics era
Annunziata CM, Azad N, Dhamoon AS, Whiteley G, Kohn EC.
Int J Gynecol Cancer (2008) 18(Suppl 1): 1-6
Proteomics: present and future implications in neuro-oncology
Micallef J, Gajadhar A, Wiley J, DeSouza LV, Michael Siu KW, Guha A
Neurosurgery (2008) 62(3): 539-55; discussion 539-55
Ubiquitin proteolytic system: focus on SUMO
Van G Wilson and Phillip R Heaton
Expert Review of Proteomics (2008) 5(1): 121-135
Rooteomics: the challenge of discovering plant defense-related proteins in roots
Mehta A, Magalhães BS, Souza DS, Vasconcelos EA, Silva LP, Grossi-de-Sa MF, Franco OL, da Costa PH, Rocha TL.
Curr Protein Pept Sci (2008) 9(2): 108-16
A multi-angular mass spectrometric view at cyclic nucleotide dependent protein kinases: In vivo characterization and structure/function relationships
Scholten A, Aye TT, Heck AJ.
Mass Spectrom Rev Early Edition: published 31-Mar-2008
Cancer Proteomics by Quantitative Shotgun Proteomics
Chen EI, Yates JR.
Mol Oncol (2007) 1(2): 144-159
Proteomic signatures uncover thiol-specific electrophile resistance mechanisms in Bacillus subtilis
Haike Antelmann, Michael Hecker, and Peter Zuber
Expert Review of Proteomics (2008) 5(1): 77-90
Identifying autoantigens as theranostic targets: Antigen arrays and immunoproteomics approaches
Tassinari OW, Caiazzo RJ Jr, Ehrlich JR, Liu BC.
Curr Opin Mol Ther (2008) 10(2): 107-15
From proteomics toward systems biology: integration of different types of proteomics data into network models
Rho S, You S, Kim Y, Hwang D.
BMB Rep (2008) 41(3): 184-93
Recent developments in mass spectrometry-based quantitative phosphoproteomics
Smith JC, Figeys D.
Biochem Cell Biol (2008) 86(2): 137-48
Proteomics in gram-negative bacterial outer membrane vesicles
Lee EY, Choi DS, Kim KP, Gho YS
Mass Spectrom Rev Early Edition: published 2008 Apr 17
Genomics and proteomics in predicting cancer outcomes
Parikh AA, Johnson JC, Merchant NB.
Surg Oncol Clin N Am (2008) 17(2): 257-77
Reproducibility of Mass Spectrometry Based Protein Profiles for Diagnosis of Breast Cancer across Clinical Studies: A Systematic Review
Anne K. Callesen, Werner Vach, Per E. Jørgensen, Søren Cold, Ole Mogensen, Torben A. Kruse, Ole N. Jensen, and Jonna S. Madsen
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1395-1402
Proteomic analysis of cartilage proteins
Wilson R, Belluoccio D, Bateman JF.
Methods (2008) 45(1): 22-31
Proteomics of Breast Cancer: The Quest for Markers and Therapeutic Targets
Hubert Hondermarck, Christophe Tastet, Ikram El Yazidi-Belkoura, Robert-Alain Toillon, and Xuefen Le Bourhis
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1403-1411
Proteomics in liver fibrosis is more than meets the eye
Cheung KJ, Tilleman K, Deforce D, Colle I, Van Vlierberghe H.
Eur J Gastroenterol Hepatol (2008) 20(5): 450-64
Free-flow electrophoresis system for proteomics applications
Weber G, Wildgruber R.
Methods Mol Biol (2008) 384: 703-16
Proteome analysis of non-model plants: A challenging but powerful approach
Carpentier SC, Panis B, Vertommen A, Swennen R, Sergeant K, Renaut J, Laukens K, Witters E, Samyn B, Devreese B.
Mass Spectrom Rev Early Edition: published 1-Apr-2008
Mass Spectrometry-based Proteomics: A Useful Tool for Biomarker Discovery?
Gramolini A, Peterman S, Kislinger T.
Clin Pharmacol Ther Early Edition: published 19-Mar-2008
Breast Tumor Microenvironment: Proteomics Highlights the Treatments Targeting Secretome
Shui-Tein Chen, Tai-Long Pan, Hsueh-Fen Juan, Tai-Yuan Chen, Yih-Shyan Lin, and Chun-Ming Huang
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1379-1387
Proteomics with a pinch of salt: a cyanobacterial perspective
Pandhal J, Wright PC, Biggs CA.
Saline Systems (2008) 4(1): 1
AQP1 expression analysis in human diseases: implications for proteomic characterization
Fulvio Magni, Clizia Chinello, Francesca Raimondo, Paolo Mocarelli, Marzia Galli Kienle, and Marina Pitto
Expert Review of Proteomics (2008) 5(1): 29-44
Humoral Immunity Directed against Tumor-Associated Antigens As Potential Biomarkers for the Early Diagnosis of Cancer
Hailing Lu, Vivian Goodell, and Mary L. Disis
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1388-1394
Proteomics and Kidney Stone Disease
Thongboonkerd V.
Contrib Nephrol (2008) 160: 142-158
Membrane proteins as diagnostic biomarkers and targets for new therapies
Josic D, Clifton JG, Kovac S, Hixson DC.
Curr Opin Mol Ther (2008) 10(2): 116-23
Biomarkers of primary and evolving damage in traumatic and ischemic brain injury: diagnosis, prognosis, probing mechanisms, and therapeutic decision making
Kochanek PM, Berger RP, Bayr H, Wagner AK, Jenkins LW, Clark RS.
Curr Opin Crit Care (2008) 14(2): 135-141
The use of blood biomarkers to predict radiation lung toxicity: a potential strategy to individualize thoracic radiation therapy
Kong FM, Ao X, Wang L, Lawrence TS.
Cancer Control (2008) 15(2): 140-50
Proteomics of pancreatic cancer
Grantzdorffer I, Carl-McGrath S, Ebert MP, Rocken C
Pancreas (2008) 36(4): 329-36
Practical approaches to proteomic biomarkers within prostate cancer radiotherapy trials
Christensen E, Evans KR, Menard C, Pintilie M, Bristow RG
Cancer Metastasis Rev Early Edition: published 2008 Apr 22
Nitrosative protein tyrosine modifications: biochemistry and functional significance
Yeo WS, Lee SJ, Lee JR, Kim KP.
BMB Rep (2008) 41(3): 194-203
Mining the plasma proteome for cancer biomarkers
Hanash SM, Pitteri SJ, Faca VM.
Nature (2008) 452(7187): 571-9
Chromatin proteomics and epigenetic regulatory circuits
Clemens Bonisch, Sonja M Nieratschker, Nikos K Orfanos, and Sandra B Hake
Expert Review of Proteomics (2008) 5(1): 105-119
High-dimensional biology to comprehend hepatocellular carcinoma
Perumal Vivekanandan and Om V Singh
Expert Review of Proteomics (2008) 5(1): 45-60
Detecting nitrated proteins by proteomic technologies
Butt YK, Lo SC
Methods Enzymol (2008) 440: 17-31
Chip-Based Enrichment and NanoLC−MS/MS Analysis of Phosphopeptides from Whole Lysates
Shabaz Mohammed, Karsten Kraiczek, Martijn W. H. Pinkse, Simone Lemeer, Joris J. Benschop, and Albert J. R. Heck
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1565-1571
Two-dimensional strong cation exchange/porous layer open tubular/mass spectrometry for ultratrace proteomic analysis using a 10 mum id poly(styrene- divinylbenzene) porous layer open tubular column with an on-line triphasic trapping column
Luo Q, Gu Y, Wu SL, Rejtar T, Karger BL.
Electrophoresis Early Edition: published 26-Mar-2008
Detection and analysis of protein-protein interactions of organellar and prokaryotic proteomes by blue native and colorless native gel electrophoresis
Krause F, Seelert H
Curr Protoc Protein Sci (2008) Chapter 14: Unit 14.11
Precision enhancement of MALDI-TOF MS using high resolution peak detection and label-free alignment
Maureen B. Tracy, Haijian Chen, Dennis M. Weaver, Dariya I. Malyarenko, Maciek Sasinowski, Lisa H. Cazares, Richard R. Drake, O. John Semmes, Eugene R. Tracy, William E. Cooke
PROTEOMICS (2008) 8(8): 1530-1538
DIRECT PROFILING AND IMAGING OF PLANT METABOLITES IN INTACT TISSUES BY USING COLLOIDAL GRAPHITE-ASSISTED LASER DESORPTION IONIZATION (GALDI) MASS SPECTROMETRY
Cha S, Zhang H, Ilarslan HI, Wurtele ES, Brachova L, Nikolau BJ, Yeung ES.
Plant J Early Edition: published 4-Apr-2008
Development of affinity columns for the removal of high-abundant proteins in cerebrospinal fluid
Ramström M, Zuberovic A, Grönwall C, Hanrieder J, Bergquist J, Hober S.
Biotechnol Appl Biochem Early Edition: published 15-Apr-2008
Quantitative proteome mapping of nitrotyrosines
Bigelow DJ, Qian WJ
Methods Enzymol (2008) 440: 191-205
Improving image analysis in 2DGE-based redox proteomics by labeling protein carbonyl with fluorescent hydroxylamine
Poon HF, Abdullah L, Reed J, Doore SM, Laird C, Mathura V, Mullan M, Crawford F.
Biol Proced Online (2007) 9: 65-72.
Differentiating Proteomic Biomarkers in Breast Cancer by Laser Capture Microdissection and MALDI MS
Melinda E. Sanders, Eduardo C. Dias, Baogang J. Xu, James A. Mobley, Dean Billheimer, Heinrich Roder, Julia Grigorieva, Mitchell Dowsett, Carlos L. Arteaga, and Richard M. Caprioli
JOURNAL OF PROTEOME RESEARCH (2008) 7(04): 1500-1507
Online Automated in Vivo Zebrafish Phosphoproteomics: From Large-Scale Analysis Down to a Single Embryo
Simone Lemeer, Martijn W. H. Pinkse, Shabaz Mohammed, Bas van Breukelen, Jeroen den Hertog, Monique Slijper, and Albert J. R. Heck
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