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SPS' DigestIssue 41, 7-May-2007 |
Complexity and scoring function of MS/MS peptide de novo sequencing
Xu C, Ma B
Comput Syst Bioinformatics Conf (2006) 5: 361-9
Predicting protein function by machine learning on amino acid sequences - A critical evaluation
Al-Shahib A, Breitling R, Gilbert DR.
BMC Genomics (2007) 8(1): 78
Modeling Protein-Protein Complexes Involved in the Cytochrome c Oxidase Copper-Delivery Pathway
Aalt D. J. van Dijk, Simone Ciofi-Baffoni, Lucia Banci, Ivano Bertini, Rolf Boelens, and Alexandre M. J. J. Bonvin
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1530-1539
Predicting Nuclear Localization
John Hawkins, Lynne Davis, and Mikael Bodén
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1402-1409
Strategy for selecting and characterizing linker peptides for CBM9-tagged fusion proteins expressed in E. coli
Kavoosi M, Creagh AL, Kilburn DG, Haynes CA.
Biotechnol Bioeng Early Edition: published 29-Mar-2007
Discovering robust protein biomarkers for disease from relative expression reversals in 2-D DIGE data
Anderson TJ, Tchernyshyov I, Diez R, Cole RN, Geman D, Dang CV, Winslow RL
Proteomics (2007) 7(8): 1197-207
TOOLbox: Automatic validation of phosphopeptide identifications | Assessing human protein interaction maps | Faster database searches | ByOnic
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1238-1239
Superfamily Assignments for the Yeast Proteome through Integration of Structure Prediction with the Gene Ontology
Malmstrom L, Riffle M, Strauss CE, Chivian D, Davis TN, Bonneau R, Baker D.
PLoS Biol (2007) 5(4): e76
An iterative algorithm to quantify the factors influencing peptide fragmentation for MS/MS spectrum
Yu C, Lin Y, Sun S, Cai J, Zhang J, Zhang Z, Chen R, Bu D
Comput Syst Bioinformatics Conf (2006) 5: 353-60
Fragmentation Characteristics of Collision-Induced Dissociation in MALDI TOF/TOF Mass Spectrometry
Jainab Khatun, Kevin Ramkissoon, and Morgan C. Giddings
ANALYTICAL CHEMISTRY (2007) 79(8): 3032-3040
A mass accuracy sensitive probability based scoring algorithm for database searching of tandem mass spectrometry data
Xu H, Freitas MA
BMC Bioinformatics (2007) 8: 133
LIMPIC: a computational method for the separation of protein MALDI-TOF-MS signals from noise
Mantini D, Petrucci F, Pieragostino D, Del Boccio P, Di Nicola M, Di Ilio C, Federici G, Sacchetta P, Comani S, Urbani A.
BMC Bioinformatics (2007) 8(1): 101
Comparative Bioinformatics Analyses and Profiling of Lysosome-Related Organelle Proteomes
Hu ZZ, Valencia JC, Huang H, Chi A, Shabanowitz J, Hearing VJ, Appella E, Wu C.
Int J Mass Spectrom (2007) 259(1-3): 147-160
UniRef: Comprehensive and Non-Redundant UniProt Reference Clusters
Suzek BE, Huang H, McGarvey P, Mazumder R, Wu CH.
Bioinformatics Early Edition: published 22-Mar-2007
UbiProt: a database of ubiquitylated proteins
Chernorudskiy AL, Garcia A, Eremin EV, Shorina AS, Kondratieva EV, Gainullin MR
BMC Bioinformatics (2007) 8: 126
A systems biology case study of ovarian cancer drug resistance
Chen JY, Shen C, Yan Z, Brown DP, Wang M.
Comput Syst Bioinformatics Conf (2006) 5: 389-98
Simplification of Mass Spectral Analysis of Acidic Glycopeptides Using GlycoPep ID
Janet Irungu, Eden P. Go, Dilusha S. Dalpathado, and Heather Desaire
ANALYTICAL CHEMISTRY (2007) 79(8): 3065-3074
The synaptic vesicle proteome
Burre J, Volknandt W.
J Neurochem Early Edition: published 9-Mar-2007
Distinctive features of large complex virus genomes and proteomes
Mrazek J, Karlin S.
Proc Natl Acad Sci U S A Early Edition: published 9-Mar-2007
In Vitro Expression Levels of Cell-Cycle Checkpoint Proteins Are Associated with Cellular DNA Repair Capacity in Peripheral Blood Lymphocytes: A Multivariate Analysis
You-Hong Fan, Zhibin Hu, Chunying Li, Li-E Wang, Zhaozheng Guo, Yawei Qiao, Li Zhang, Wei Zhang, Li Mao, and Qingyi Wei
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1560-1567
Complex analytical approach to characterization of the influence of carbon dioxide concentration on carbohydrate composition in Norway spruce needles
Cabalkova J, Wahlund KG, Chmelik J.
J Chromatogr A Early Edition: published 15-Mar-2007
p53 targets identified by protein expression profiling
Rahman-Roblick R, Roblick UJ, Hellman U, Conrotto P, Liu T, Becker S, Hirschberg D, Jornvall H, Auer G, Wiman KG.
Proc Natl Acad Sci U S A Early Edition: published 19-Mar-2007
Proteomic characterization of copper stress response in Cannabis sativa roots
Elisa Bona, Francesco Marsano, Maria Cavaletto, Graziella Berta
PROTEOMICS (2007) 7(7): 1121-1130
Exploring proteasome complexes by proteomic approaches
Oliver Drews, Chenggong Zong, Peipei Ping
PROTEOMICS (2007) 7(7): 1047-1058
Cross-Linking Yield Variation of a Potent Matrix Metalloproteinase Photoaffinity Probe and Consequences for Functional Proteomics
David A, Steer D, Bregant S, Devel L, Makaritis A, Beau F, Yiotakis A, Dive V.
Angew Chem Int Ed Engl Early Edition: published 23-Mar-2007
Interaction between Inducible Nitric Oxide Synthase and Calmodulin in Ca2+-Free and -Bound Forms
Han Xiao, Hui Zhou, Guifang Chen, Shanli Liu, and Genxi Li
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1426-1429
Quantitative proteomic analysis of human breast epithelial cells with differential telomere length
Yu LR, Chan KC, Tahara H, Lucas DA, Chatterjee K, Issaq HJ, Veenstra TD.
Biochem Biophys Res Commun Early Edition: published 22-Mar-2007
Absence of Increased {alpha}1-Microglobulin in IgA Nephropathy Proteinuria
Hiroyuki Yokota, Masashi Hiramoto, Hirokazu Okada, Yoshihiko Kanno, Masatoshi Yuri, Shuji Morita, Masanori Naitou, Atsushi Ichikawa, Masao Katoh, and Hiromichi Suzuki
Mol Cell Proteomics (2007) 6(4): 738-744
A comparative proteome analysis of human metaphase chromosomes isolated from two different cell lines reveals a set of conserved chromosome-associated proteins
Takata H, Uchiyama S, Nakamura N, Nakashima S, Kobayashi S, Sone T, Kimura S, Lahmers S, Granzier H, Labeit S, Matsunaga S, Fukui K.
Genes Cells (2007) 12(3): 269-84
Characterization of the Human Visceral Adipose Tissue Secretome
Gloria Alvarez-Llamas, Ewa Szalowska, Marcel P. de Vries, Desiree Weening, Karloes Landman, Annemieke Hoek, Bruce H. R. Wolffenbuttel, Han Roelofsen, and Roel J. Vonk
Mol Cell Proteomics (2007) 6(4): 589-600
Identification of proteins involved in osmotic stress response in Enterobacter sakazakii by proteomics
Riedel K, Lehner A
Proteomics (2007) 7(8): 1217-31
Mass spectrometry for the quantification of bioactive peptides in biological fluids
Constantin Tamvakopoulos
Mass Spectrometry Reviews (2007) 26(3): 389-402
Seeking Transformation Markers: An Analysis of Differential Tissue Proteomes on the Rice Germplasm Generated from Transformation of Echinochloa crusgalli Genomic DNA
Caifeng Zhao, Bingran Zhao, Yan Ren, Wei Tong, Jingqiang Wang, Kang Zhao, Shaokun Shu, Ningzhi Xu, and Siqi Liu
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1354-1363
Proteomics of the flesh fly brain reveals an abundance of upregulated heat shock proteins during pupal diapause
Li AQ, Popova-Butler A, Dean DH, Denlinger DL.
J Insect Physiol Early Edition: published 1-Feb-2007
Quantitative Proteomics Analysis of Human Endothelial Cell Membrane Rafts: Evidence of MARCKS and MRP Regulation in the Sphingosine 1-Phosphate-induced Barrier Enhancement
Yurong Guo, Patrick A. Singleton, Austin Rowshan, Marjan Gucek, RobertN. Cole, David R. M. Graham, Jennifer E. Van Eyk, and Joe G. N. Garcia
Mol Cell Proteomics (2007) 6(4): 689-696
Expression of AGR-2 in Chicken Oviduct during Laying Period
Kim NS, Shen YN, Kim TY, Byun SJ, Jeon IS, Kim SH.
J Biochem Mol Biol (2007) 40(2): 212-7
Altered Proteome in Burkholderia pseudomallei rpoE Operon Knockout Mutant: Insights into Mechanisms of rpoE Operon in Stress Tolerance, Survival, and Virulence
Visith Thongboonkerd, Muthita Vanaporn, Napat Songtawee, Rattiyaporn Kanlaya, Supachok Sinchaikul, Shui-Tein Chen, Anna Easton, Karen Chu, Gregory J. Bancroft, and Sunee Korbsrisate
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1334-1341
Effects of Helicobacter hepaticus on the proteome of HEp-2 cells
Okoli AS, Fox EM, Raftery MJ, Mendz GL.
Antonie Van Leeuwenhoek Early Edition: published 15-Mar-2007
Combined Transcriptome and Proteome Analysis Identifies Pathways and Markers Associated with the Establishment of Brassica napus Microspore-derived Embryo development
Joosen R, Cordewener J, Supena ED, Vorst O, Lammers M, Maliepaard C, Zeilmaker T, Miki B, America T, Custers J, Boutilier K.
Plant Physiol Early Edition: published 23-Mar-2007
CCSP REGULATES CROSS-TALK BETWEEN SECRETORY CELLS AND BOTH CILIATED CELLS AND MACROPHAGES OF THE CONDUCTING AIRWAY
Reynolds SD, Reynolds PR, Snyder JC, Whyte F, Paavola KJ, Stripp BR.
Am J Physiol Lung Cell Mol Physiol Early Edition: published 23-Mar-2007
Phagosome proteomes open the way to a better understanding of phagosome function
Griffiths G, Mayorga L.
Genome Biol (2007) 8(3): 207
Comprehensive Proteomic Analysis of Human Cervical-Vaginal Fluid
Surendra Dasari, Leonardo Pereira, Ashok P. Reddy, John-Edward A. Michaels, Xinfang Lu, Thomas Jacob, Archana Thomas, Matthew Rodland, Charles T. Roberts, Jr., Michael G. Gravett, and Srinivasa R. Nagalla
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1258-1268
Proteomic analysis of rice seedlings during cold stress
Hashimoto M, Komatsu S
Proteomics (2007) 7(8): 1293-302
A Draft of Protein Interactions in the Malaria Parasite P. falciparum
Stefan Wuchty and Jonathan J. Ipsaro
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1461-1470
Large Scale Identification of Proteins, Mucins, and Their O-Glycosylation in the Endocervical Mucus during the Menstrual Cycle
Ylva Andersch-Bjorkman, Kristina A. Thomsson, Jessica M. Holmen Larsson, Erling Ekerhovd, and Gunnar C. Hansson
Mol Cell Proteomics (2007) 6(4): 708-716
Functional proteomics in Ciona intestinalis: A breakthrough in the exploration of the molecular and cellular mechanism of ascidian development
Inaba K, Nomura M, Nakajima A, Hozumi A.
Dev Dyn Early Edition: published 20-Mar-2007
The 20S proteasome of Schistosoma mansoni: A proteomic analysis
William Castro-Borges, Jared Cartwright, Peter D. Ashton, Simon Braschi, Renata Guerra Sa, Vanderlei Rodrigues, R. Alan Wilson, Rachel S. Curwen
PROTEOMICS (2007) 7(7): 1065-1075
Contamination of nuclear fractions with plasma membrane lipid rafts
Yee-How Say, Nigel M. Hooper
PROTEOMICS (2007) 7(7): 1059-1064
Phanerochaete chrysosporium soluble proteome as a prelude for the analysis of heavy metal stress response
Ozcan S, Yildirim V, Kaya L, Albrecht D, Becher D, Hecker M, Ozcengiz G
Proteomics (2007) 7(8): 1249-1260
Advances in neuromembrane proteomics: efforts towards a comprehensive analysis of membrane proteins in the brain
Grant KJ, Wu CC.
Brief Funct Genomic Proteomic Early Edition: published 12-Mar-2007
Proteomic Analysis of Salivary Acidic Proline-Rich Proteins in Human Preterm and At-Term Newborns
Rosanna Inzitari, Giovanni Vento, Ettore Capoluongo, Simona Boccacci, Chiara Fanali, Tiziana Cabras, Costantino Romagnoli, Bruno Giardina, Irene Messana, and Massimo Castagnola
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1371-1377
Lysine Trimethylation of Retinoic Acid Receptor-{alpha}: A Novel Means To Regulate Receptor Function
M. D. Mostaqul Huq, Nien-Pei Tsai, Shaukat Ali Khan, and Li-Na Wei
Mol Cell Proteomics (2007) 6(4): 677-688
Effect of aging and caloric restriction on the mitochondrial proteome
Chang J, Cornell JE, Van Remmen H, Hakala K, Ward WF, Richardson A.
J Gerontol A Biol Sci Med Sci (2007) 62(3): 223-34
Nitric Oxide and Oxygen Radical Attack on GDP-Dissociation Inhibitor 2 (GDI-2) in Spinal Cord Injury of the Rat
Julius Paul Pradeep John, Oliver Pintsov, Alexander Petter-Puchner, Heinz Redl, Arnold Pollak, Wei-Qiang Chen, and Gert Lubec
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1500-1509
Adaptive response to environmental changes in the fish pathogen Moritella viscosa
Tunsjo HS, Paulsen SM, Mikkelsen H, L'abee-Lund TM, Skjerve E, Sorum H.
Res Microbiol Early Edition: published 14-Jan-2007
Proteomic analysis of Bacillus cereus growing in liquid soil organic matter
Luo Y, Vilain S, Voigt B, Albrecht D, Hecker M, Brozel VS.
FEMS Microbiol Lett Early Edition: published 28-Mar-2007
Comprehensive Proteomic Analysis of the Human Amniotic Fluid Proteome: Gestational Age-Dependent Changes
John-Edward A. Michaels, Surendra Dasari, Leonardo Pereira, Ashok P. Reddy, Jodi A. Lapidus, Xinfang Lu, Thomas Jacob, Archana Thomas, Matthew Rodland, Charles T. Roberts, Jr., Michael G. Gravett, and Srinivasa R. Nagalla
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1277-1285
Proteome analysis of soluble nuclear proteins reveals that HMGB1/2 suppress genotoxic stress in polyglutamine diseases
Qi ML, Tagawa K, Enokido Y, Yoshimura N, Wada YI, Watase K, Ishiura SI, Kanazawa I, Botas J, Saitoe M, Wanker EE, Okazawa H.
Nat Cell Biol Early Edition: published 25-Mar-2007
Proteome Changes in Leaves from Grapevine (Vitis vinifera L.) Transformed for Alcohol Dehydrogenase Activity
Sauvage FX, Pradal M, Chatelet P, Tesniere C.
J Agric Food Chem Early Edition: published 10-Mar-2007
Large-Scale Proteomics Analysis of Human Ovarian Cancer for Biomarkers
Sofia Bengtsson, Morten Krogh, Cristina Al-Khalili Szigyarto, Mathias Uhlen, Kjell Schedvins, Claes Silfverswärd, Stig Linder, Gert Auer, Ayodele Alaiya, and Peter James
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1440-1450
Proteomics in neurosciences
Anna Drabik, Anna Bierczynska-Krzysik, Anna Bodzon-Kulakowska, Piotr Suder, Jolanta Kotlinska, Jerzy Silberring
Mass Spectrometry Reviews (2007) 26(3): 432-450
Proteomic Analysis Methods for Characterization of Proteins from the Salivary Gland Secretions of the Medicinal Leech during Different Seasons
Baskova IP, Zavalova LL, Kostrjukova ES, Titova GA, Lazarev VN, Zgoda VG.
Biochemistry (Mosc) (2007) 72(2): 219-25
Low molecular weight proteins of outer membrane of Salmonella typhimurium are immunogenic in Salmonella induced reactive arthritis revealed by proteomics
Singh R, Shasany AK, Aggarwal A, Sinha S, Sisodia BS, Khanuja SP, Misra R.
Clin Exp Immunol Early Edition: published 22-Mar-2007
Proteomics Analysis of the Interactome of N-myc Downstream Regulated Gene 1 and Its Interactions with the Androgen Response Program in Prostate Cancer Cells
Lan Chun Tu, Xiaowei Yan, Leroy Hood, and Biaoyang Lin
Mol Cell Proteomics (2007) 6(4): 575-588
Proteome changes associated with hippocampal MRI abnormalities in the lithium pilocarpine-induced model of convulsive status epilepticus
Greene ND, Bamidele A, Choy M, de Castro SC, Wait R, Leung KY, Begum S, Gadian DG, Scott RC, Lythgoe MF
Proteomics (2007) 7(8): 1336-44
Proteomic and phototoxic characterization of melanolipofuscin: correlation to disease and model for its origin
Warburton S, Davis WE, Southwick K, Xin H, Woolley AT, Burton GF, Thulin CD.
Mol Vis (2007) 13: 318-29.
Safeners coordinately induce the expression of multiple proteins and MRP transcripts involved in herbicide metabolism and detoxification in Triticum tauschii seedling tissues
Zhang Q, Xu F, Lambert KN, Riechers DE
Proteomics (2007) 7(8): 1261-78
Enzymes and related proteins as cancer biomarkers: A proteomic approach
Liang SL, Chan DW.
Clin Chim Acta Early Edition: published 20-Feb-2007
HDM2-Binding Partners: Interaction with Translation Elongation Factor EF1
Rebecca Frum, Scott A. Busby, Mahesh Ramamoorthy, Sumitra Deb, Jeffrey Shabanowitz, Donald F. Hunt, and Swati P. Deb
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1410-1417
Identification of Novel Protein Biomarkers of Preterm Birth in Human Cervical-Vaginal Fluid
Leonardo Pereira, Ashok P. Reddy, Thomas Jacob, Archana Thomas, Kimberly A. Schneider, Surendra Dasari, Jodi A. Lapidus, Xinfang Lu, Matthew Rodland, Charles T. Roberts, Jr., Michael G. Gravett, and Srinivasa R. Nagalla
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1269-1276
Radiation leukemogenesis: A proteomic approach
Rithidech KN, Honikel L, Simon SR.
Exp Hematol (2007) 35(4 Suppl 1): 117-24
Neurogenesis and major depression: implications from proteomic analyses of hippocampal proteins in a rat depression model
Mu J, Xie P, Yang ZS, Yang DL, Lv FJ, Luo TY, Li Y.
Neurosci Lett Early Edition: published 3-Feb-2007
Application of two-dimensional electrophoresis in the research of retinal proteins of diabetic rat
Liu SQ, Zhang YY, Xie XY, Hu WM, Cai R, Kang J, Yang HJ.
Cell Mol Immunol (2007) 4(1): 65-70
Proteomic analysis of Tiam1-mediated metastasis in colorectal cancer
Liu L, Zhao L, Zhang Y, Zhang Q, Ding Y.
Cell Biol Int Early Edition: published 21-Jan-2007
Cardiovascular proteomic analysis
Suzuki T, Nagai R.
J Chromatogr B Analyt Technol Biomed Life Sci Early Edition: published 4-Mar-2007
Proteome analysis of cerebrospinal fluid in Guillain-Barre syndrome (GBS)
Lehmensiek V, Sussmuth SD, Brettschneider J, Tauscher G, Felk S, Gillardon F, Tumani H.
J Neuroimmunol Early Edition: published 15-Mar-2007
Anti-synthetase syndrome: a new autoantibody to phenylalanyl transfer RNA synthetase (anti-Zo) associated with polymyositis and interstitial pneumonia
Betteridge Z, Gunawardena H, North J, Slinn J, McHugh N.
Rheumatology (Oxford) Early Edition: published 27-Mar-2007
Antibody therapy (IVIG): evaluation of the use of genomics and proteomics for the study of immunomodulation therapeutics
Sapan CV, Reisner HM, Lundblad RL.
Vox Sang (2007) 92(3): 197-205
Iron-independent specific protein expression pattern in the liver of HFE-deficient mice
Petrak J, Myslivcova D, Halada P, Cmejla R, Cmejlova J, Vyoral D, Vulpe CD.
Int J Biochem Cell Biol Early Edition: published 28-Jan-2007
Analysis of mouse skin reveals proteins that are altered in a diet-induced diabetic state: A new method for detection of type 2 diabetes
Edward O. List, Darlene E. Berryman, Amanda J. Palmer, Linghua Qiu, Sudha Sankaran, Doug T. Kohn, Bruce Kelder, Shigeru Okada, John J. Kopchick
PROTEOMICS (2007) 7(7): 1140-1149
A reference map of human nasopharyngeal squamous carcinoma proteome
Li F, Xiao Z, Zhang P, Li J, Li M, Feng X, Guan Y, Chen Z.
Int J Oncol (2007) 30(5): 1077-88
Proteomics: A Novel Methodology to Complement Prenatal Diagnosis of Chromosomal Abnormalities and Inherited Human Diseases
Bahtiyar MO, Copel JA, Mahoney MJ, Buhimschi IA, Buhimschi CS.
Am J Perinatol Early Edition: published 19-Mar-2007
Identification of in-vivo Expressed Immunogenic Proteins by Serological Proteome Analysis of Bacillus anthracis Secretome
Chitlaru T, Gat O, Grosfeld H, Inbar I, Gozlan Y, Shafferman A.
Infect Immun Early Edition: published 12-Mar-2007
Quality control of human tissues-experience from the Indiana University Cancer Center-Lilly Research Labs human tissue bank
Sandusky GE, Teheny KH, Esterman M, Hanson J, Williams SD.
Cell Tissue Bank Early Edition: published 27-Mar-2007
Proteomic Identification of Novel Proteins in Cortical Lewy Bodies
Leverenz JB, Umar I, Wang Q, Montine TJ, McMillan PJ, Tsuang DW, Jin J, Pan C, Shin J, Zhu D, Zhang J.
Brain Pathol (2007) 17(2): 139-145
Biomarker discovery in lung cancer - promises and challenges of clinical proteomics
Ajit Bharti, Patrick C. Ma, Ravi Salgia
Mass Spectrometry Reviews (2007) 26(3): 451-466
An introduction to biomarkers: applications to chronic kidney disease
Lemley KV.
Pediatr Nephrol Early Edition: published 30-Mar-2007
Comparative proteomic analysis of human pancreatic juice: Methodological study
Zhou L, Lu Z, Yang A, Deng R, Mai C, Sang X, Faber KN, Lu X
Proteomics (2007) 7(8): 1345-55
Proteome characterization of a human urothelial cells resistant to the bladder carcinogen 4-aminobiphenyl
Pastorelli R, Saletta F, Carpi D, Campagna R, Dell'Osta C, Schiarea S, Vineis P, Airoldi L, Matullo G
Proteome Science (2007) 5: 6
Proteomics in prostate cancer research
Hellstrom M, Lexander H, Franzen B, Egevad L.
Anal Quant Cytol Histol (2007) 29(1): 32-40
Identification of specific reachable molecular targets in human breast cancer using a versatile ex vivo proteomic method
Castronovo V, Kischel P, Guillonneau F, de Leval L, Defechereux T, De Pauw E, Neri D, Waltregny D
Proteomics (2007) 7(8): 1188-96
Somatostatin effects on the proteome of the LNCaP cell-line
Liu Z, Bengtsson S, Krogh M, Marquez M, Nilsson S, James P, Aliaya A, Holmberg AR.
Int J Oncol (2007) 30(5): 1173-9
Involvement of Splicing Factor-1 in beta-Catenin/T-Cell Factor-4-Mediated Gene Transactivation and Pre-mRNA Splicing
Shitashige M, Naishiro Y, Idogawa M, Honda K, Ono M, Hirohashi S, Yamada T.
Gastroenterology (2007) 132(3): 1039-54
Proteomic discovery of CSF biomarkers for Alzheimer's disease
Zhang J, Montine TJ.
Ann Neurol Early Edition: published 14-Mar-2007
Role of biomarkers in developing new therapies for vascular disease
Nambi V, Ballantyne CM.
World J Surg (2007) 31(4): 676-81
Mass spectrometry-based ?omics? technologies in cancer diagnostics
Xuewu Zhang, Dong Wei, Yeeleng Yap, Lin Li, Siyuan Guo, Feng Chen
Mass Spectrometry Reviews (2007) 26(3): 403-431
Protein expression associated with early intrahepatic recurrence of hepatocellular carcinoma after curative surgery
Yokoo H, Kondo T, Okano T, Nakanishi K, Sakamoto M, Kosuge T, Todo S, Hirohashi S.
Cancer Sci Early Edition: published 28-Mar-2007
Two-dimensional electrophoresis analyses of atopic dermatitis and the chances to detect new candidate proteins by the variations in immobilized pH gradient strips
Park YD, Lyou YJ, Yang JM.
J Dermatol Sci Early Edition: published 10-Mar-2007
Proteomic Analysis of the Resistance to Aplidin in Human Cancer Cells
Laura Gonz lez-Santiago, Patricia Alfonso, Yajaira Su rez, Antonio Núñez, Luis F. García-Fern ndez, Enrique Alvarez, Alberto Muñoz, and J. Ignacio Casal
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1286-1294
Proteomic Analysis of Maternal Serum in Down Syndrome: Identification of Novel Protein Biomarkers
Srinivasa R. Nagalla, Jacob A. Canick, Thomas Jacob, Kimberly A. Schneider, Ashok P. Reddy, Archana Thomas, Surendra Dasari, Xinfang Lu, Jodi A. Lapidus, Geralyn M. Lambert-Messerlian, Michael G. Gravett, Charles T. Roberts, Jr., David Luthy,O, Fergal D. Malone, and Mary E. D'Alton
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1245-1257
Novel panel of cerebrospinal fluid biomarkers for the prediction of progression to Alzheimer dementia in patients with mild cognitive impairment
Simonsen AH, McGuire J, Hansson O, Zetterberg H, Podust VN, Davies HA, Waldemar G, Minthon L, Blennow K.
Arch Neurol (2007) 64(3): 366-70
Blood proteome profiling in case controls and Parkinson's disease patients in Indian population
Sinha A, Patel S, Shukla R, Singh MP.
Clin Chim Acta Early Edition: published 20-Feb-2007
Antigen discovery: A postgenomic approach to paratuberculosis diagnosis
Baptiste Leroy, Virginie Roupie, Isabelle Noël-Georis, Valérie Rosseels, Karl Walravens, Marc Govaerts, Kris Huygen, Ruddy Wattiez
PROTEOMICS (2007) 7(7): 1164-1176
Glycosylation of sputum mucins is altered in cystic fibrosis patients
Schulz BL, Sloane AJ, Robinson LJ, Prasad SS, Lindner RA, Robinson M, Bye PT, Nielson DW, Harry JL, Packer NH, Karlsson NG.
Glycobiology Early Edition: published 28-Mar-2007
Proteomic analysis of exfoliation deposits
Ovodenko B, Rostagno A, Neubert TA, Shetty V, Thomas S, Yang A, Liebmann J, Ghiso J, Ritch R.
Invest Ophthalmol Vis Sci (2007) 48(4): 1447-57
Proteomic analysis of human vitreous fluid by fluorescence-based difference gel electrophoresis (DIGE): a new strategy for identifying potential candidates in the pathogenesis of proliferative diabetic retinopathy
Garcia-Ramirez M, Canals F, Hernandez C, Colome N, Ferrer C, Carrasco E, Garcia-Arumi J, Simo R.
Diabetologia Early Edition: published 23-Mar-2007
An increase in S-glutathionylated proteins in the Alzheimer's disease inferior parietal lobule, a proteomics approach
Newman SF, Sultana R, Perluigi M, Coccina R, Cai J, Pierce WM, Klein JB, Turner DM, Butterfield DA.
J Neurosci Res Early Edition: published 23-Mar-2007
A high-quality catalog of the Drosophila melanogaster proteome
Erich Brunner, Christian H Ahrens, Sonali Mohanty, Hansruedi Baetschmann, Sandra Loevenich, Frank Potthast, Eric W Deutsch, Christian Panse, Ulrik de Lichtenberg, Oliver Rinner, Hookeun Lee, Patrick G A Pedrioli, Johan Malmstrom, Katja Koehler, Sabine Schrimpf, Jeroen Krijgsveld, Floyd Kregenow, Albert J R Heck, Ernst Hafen, Ralph Schlapbach, Ruedi Aebersold
Nat Biotech Early Edition: published 22-Apr-2007
Seeking Transformation Markers: An Analysis of Differential Tissue Proteomes on the Rice Germplasm Generated from Transformation of Echinochloa crusgalli Genomic DNA
Caifeng Zhao, Bingran Zhao, Yan Ren, Wei Tong, Jingqiang Wang, Kang Zhao, Shaokun Shu, Ningzhi Xu, and Siqi Liu
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1354-1363
The nuclear proteome and DNA-binding fraction of human Raji lymphoma cells
Henrich S, Cordwell SJ, Crossett B, Baker MS, Christopherson RI.
Biochim Biophys Acta Early Edition: published 12-Feb-2007
Identification of carbonylated proteins from enriched rat skeletal muscle mitochondria using affinity chromatography-stable isotope labeling and tandem mass spectrometry
Danni L. Meany, Hongwei Xie, LaDora V. Thompson, Edgar A. Arriaga, Timothy J. Griffin
PROTEOMICS (2007) 7(7): 1150-1163
Proteomic profile of mouse fibroblasts with a targeted disruption of the peroxisome proliferator activated receptor-beta/delta gene
Adamkiewicz J, Kaddatz K, Rieck M, Wilke B, Muller-Brusselbach S, Muller R
Proteomics (2007) 7(8): 1208-16
Yeast proteome map (update 2006)
Michel Perrot, Anne-Laure Guieysse-Peugeot, Aurélie Massoni, Christelle Espagne, Stéphane Claverol, Raquel Monteiro Silva, Paul Jenö, Manuel Santos, Marc Bonneu, Hélian Boucherie
PROTEOMICS (2007) 7(7): 1117-1120
Impact of Low and High Tidal Volumes on the Rat Alveolar Epithelial Type II Cell Proteome
Hirsch J, Hansen KC, Sapru A, Frank JA, Chalkley RJ, Fang X, Trinidad JC, Baker P, Burlingame AL, Matthay MA.
Am J Respir Crit Care Med Early Edition: published 15-Mar-2007
Modeling the proteome of a Marek's disease transformed cell line: a natural animal model for CD30 overexpressing lymphomas
Buza JJ, Burgess SC
Proteomics (2007) 7(8): 1316-26
Safeners coordinately induce the expression of multiple proteins and MRP transcripts involved in herbicide metabolism and detoxification in Triticum tauschii seedling tissues
Zhang Q, Xu F, Lambert KN, Riechers DE
Proteomics (2007) 7(8): 1261-78
Comparison of proteomes in various human plasma preparations by two-dimensional gel electrophoresis
Kim HJ, Kim MR, So EJ, Kim CW.
J Biochem Biophys Methods Early Edition: published 20-Feb-2007
Quantitative Proteome Analysis of Barley Seeds Using Ruthenium(II)-tris-(bathophenanthroline-disulphonate) Staining
Katja Witzel, Giridara-Kumar Surabhi, Gottimukkala Jyothsnakumari, Chinta Sudhakar, Andrea Matros, and Hans-Peter Mock
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1325-1333
Comprehensive yeast proteome analysis using a capillary isoelectric focusing-based multidimensional separation platform coupled with ESI-MS/MS
Wang W, Guo T, Song T, Lee CS, Balgley BM
Proteomics (2007) 7(8): 1178-87
Protein expression profile in the striatum of rats with methamphetamine-induced behavioral sensitization
Takeshi Iwazaki, Iain S. McGregor, Izuru Matsumoto
PROTEOMICS (2007) 7(7): 1131-1139
Proteomic Analysis of Membrane-Associated Proteins from Rat Liver Autophagosomes
Overbye A, Fengsrud M, Seglen PO.
Autophagy Early Edition: published 19-Jul-2007
Proteomic analysis of rice seedlings during cold stress
Hashimoto M, Komatsu S
Proteomics (2007) 7(8): 1293-302
Proteomic analyses of methamphetamine (METH)-induced differential protein expression by immature dendritic cells (IDC)
Reynolds JL, Mahajan SD, Sykes DE, Schwartz SA, Nair MP.
Biochim Biophys Acta Early Edition: published 13-Feb-2007
Comparative proteomic analysis associated with term placental insufficiency in cloned pig
Lee SY, Park JY, Choi YJ, Cho SK, Ahn JD, Kwon DN, Hwang KC, Kang SJ, Paik SS, Seo HG, Lee HT, Kim JH
Proteomics (2007) 7(8): 1303-15
Implications of (15)N-metabolic labeling for automated peptide identification in Arabidopsis thaliana
Nelson CJ, Huttlin EL, Hegeman AD, Harms AC, Sussman MR
Proteomics (2007) 7(8): 1279-92
Proteomics Uncovers a Role for Redox in Drought Tolerance in Wheat
Mohsen Hajheidari, Alireza Eivazi, Bob B. Buchanan, Joshua H. Wong, Islam Majidi, and Ghasem Hosseini Salekdeh
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1451-1460
Differential Proteomic Analysis of Four Near-Isogenic Brassica napus Varieties Bred for their Erucic Acid and Glucosinolate Contents
Vanessa Devouge, Hélène Rogniaux, Nathalie Nési, Dominique Tessier, Jacques Guéguen, and Colette Larré
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1342-1353
Proteome analysis of Rickettsia felis highlights the expression profile of intracellular bacteria
Ogawa M, Renesto P, Azza S, Moinier D, Fourquet P, Gorvel JP, Raoult D
Proteomics (2007) 7(8): 1232-48
The Crl-RpoS Regulon of Escherichia coli
Cecile Lelong, Kryssia Aguiluz, Sylvie Luche, Lauriane Kuhn, Jerome Garin, Thierry Rabilloud, and Johannes Geiselmann
Mol Cell Proteomics (2007) 6(4): 648-659
The Low Molecular Weight Proteome of Halobacterium salinarum
Christian Klein, Michalis Aivaliotis, Jesper V. Olsen, Michaela Falb, Hüseyin Besir, Beatrix Scheffer, Birgit Bisle, Andreas Tebbe, Kosta Konstantinidis, Frank Siedler, Friedhelm Pfeiffer, Matthias Mann, and Dieter Oesterhelt
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1510-1518
Proteomic analysis of Burkholderia cepacia MBA4 in the degradation of monochloroacetate
Sui-Yi Kwok, Annie Fung-Ming Siu, Sai-Ming Ngai, Chi-Ming Che, Jimmy S. H. Tsang
PROTEOMICS (2007) 7(7): 1107-1116
Altered Proteome in Burkholderia pseudomallei rpoE Operon Knockout Mutant: Insights into Mechanisms of rpoE Operon in Stress Tolerance, Survival, and Virulence
Visith Thongboonkerd, Muthita Vanaporn, Napat Songtawee, Rattiyaporn Kanlaya, Supachok Sinchaikul, Shui-Tein Chen, Anna Easton, Karen Chu, Gregory J. Bancroft, and Sunee Korbsrisate
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1334-1341
Adapted tolerance to benzalkonium chloride in Escherichia coli K-12 studied by transcriptome and proteome analyses
Bore E, Hebraud M, Chafsey I, Chambon C, Skjaeret C, Moen B, Moretro T, Langsrud O, Rudi K, Langsrud S.
Microbiology (2007) 153(Pt 4): 935-946
A comprehensive proteome map of the lipid-requiring nosocomial pathogen Corynebacterium jeikeium K411
Nicole Hansmeier, Tzu-Chiao Chao, Svenja Daschkey, Mathias Müsken, Jörn Kalinowski, Alfred Pühler, Andreas Tauch
PROTEOMICS (2007) 7(7): 1076-1096
Identification of proteins involved in osmotic stress response in Enterobacter sakazakii by proteomics
Riedel K, Lehner A
Proteomics (2007) 7(8): 1217-31
Proteome Analysis of Sulfolobus solfataricus P2 Propanol Metabolism
Poh Kuan Chong, Adam M. Burja, Helia Radianingtyas, Alireza Fazeli, and Phillip C. Wright
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1430-1439
Mutual Regulation of Crl and Fur in Escherichia coli W3110
Cecile Lelong, Magali Rolland, Mathilde Louwagie, Jerome Garin, and Johannes Geiselmann
Mol Cell Proteomics (2007) 6(4): 660-668
Extensive Cell Envelope Modulation Is Associated with Virulence in Brucella abortus
Julie Lamontagne, Heather Butler, Esteban Chaves-Olarte, Joanna Hunter, Michael Schirm, Caroline Paquet, Mei Tian, Paul Kearney, Lyes Hamaidi, Daniel Chelsky, Ignacio Moriyón, Edgardo Moreno, and Eustache Paramithiotis
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1519-1529
Tryptophan Phosphorescence Studies of the D-Galactose/D-Glucose-Binding Protein from Escherichia coli Provide a Molecular Portrait with Structural and Dynamics Features of the Protein
Sabato D'Auria, Antonio Varriale, Margherita Gonnelli, Michele Saviano, Maria Staiano, Mose' Rossi, and Giovanni B. Strambini
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1306-1312
Targeted Protein Degradation by Salmonella under Phagosome-mimicking Culture Conditions Investigated Using Comparative Peptidomics
Nathan P. Manes, Jean K. Gustin, Joanne Rue, Heather M. Mottaz, SamuelO. Purvine, Angela D. Norbeck, Matthew E. Monroe, Jennifer S. D. Zimmer, Thomas O. Metz, Joshua N. Adkins, Richard D. Smith, and Fred Heffron
Mol Cell Proteomics (2007) 6(4): 717-727
From the genome sequence to the proteome and back: Evaluation of E. coli genome annotation with a 2-D gel-based proteomics approach
Isabelle Maillet, Peter Berndt, Céline Malo, Sabrina Rodriguez, René A. Brunisholz, Zoltan Pragai, Sabine Arnold, Hanno Langen, Markus Wyss
PROTEOMICS (2007) 7(7): 1097-1106
A proteome approach for characterization of hop inducible proteins in Lactobacillus brevis
Behr J, Israel L, Ganzle MG, Vogel RF.
Appl Environ Microbiol Early Edition: published 16-Mar-2007
Effects of the deficiency of the rhodanese-like protein RhdA in Azotobacter vinelandii
Cereda A, Carpen A, Picariello G, Iriti M, Faoro F, Ferranti P, Pagani S.
FEBS Lett Early Edition: published 20-Mar-2007
Applications of mass spectrometry for the structural characterization of recombinant protein pharmaceuticals
Catherine A. Srebalus Barnes, Amareth Lim
Mass Spectrometry Reviews (2007) 26(3): 370-388
Mass spectrometry for enzyme assays and inhibitor screening: An emerging application in pharmaceutical research
Kenneth D. Greis
Mass Spectrometry Reviews (2007) 26(3): 324-339
Pharmacometabonomic Phenotyping Reveals Different Responses to Xenobiotic Intervention in Rats
Houkai Li, Yan Ni, Mingming Su, Yunping Qiu, Mingmei Zhou, Mingfeng Qiu, Aihua Zhao, Liping Zhao, and Wei Jia
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1364-1370
Analytical strategies for identifying drug metabolites
Chandra Prakash, Christopher L. Shaffer, Angus Nedderman
Mass Spectrometry Reviews (2007) 26(3): 340-369
Proteome and immunome of the venom of the Thai cobra, Naja kaouthia
Kulkeaw K, Chaicumpa W, Sakolvaree Y, Tongtawe P, Tapchaisri P.
Toxicon Early Edition: published 20-Feb-2007
Proteomic Analysis of the Resistance to Aplidin in Human Cancer Cells
Laura Gonz lez-Santiago, Patricia Alfonso, Yajaira Su rez, Antonio Núñez, Luis F. García-Fern ndez, Enrique Alvarez, Alberto Muñoz, and J. Ignacio Casal
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1286-1294
Carbonylation of Adipose Proteins in Obesity and Insulin Resistance: Identification of Adipocyte Fatty Acid-binding Protein as a Cellular Target of 4-Hydroxynonenal
Paul A. Grimsrud, Matthew J. Picklo, Sr., Timothy J. Griffin, and David A. Bernlohr
Mol Cell Proteomics (2007) 6(4): 624-637
Rapid and Individual-specific Glycoprofiling of the Low Abundance N-Glycosylated Protein Tissue Inhibitor of Metalloproteinases-1
Morten Thaysen-Andersen, Ida B. Thogersen, Hans Jorgen Nielsen, Ulrik Lademann, Nils Brunner, Jan J. Enghild, and Peter Hojrup
Mol Cell Proteomics (2007) 6(4): 638-647
Multidimensional Protein Identification Technology (MudPIT) Analysis of Ubiquitinated Proteins in Plants
Rudy Maor, Alex Jones, Thomas S. Nuhse, David J. Studholme, Scott C. Peck, and Ken Shirasu
Mol Cell Proteomics (2007) 6(4): 601-610
UbiProt: a database of ubiquitylated proteins
Chernorudskiy AL, Garcia A, Eremin EV, Shorina AS, Kondratieva EV, Gainullin MR
BMC Bioinformatics (2007) 8: 126
Multiple reaction monitoring for robust quantitative proteomic analysis of cellular signaling networks
Wolf-Yadlin A, Hautaniemi S, Lauffenburger DA, White FM.
Proc Natl Acad Sci U S A Early Edition: published 26-Mar-2007
Analysis of effect of casein phosphopeptides on zinc binding using mass spectrometry
Jiaxi Wang, Kirk Green, Graham McGibbon, Brian McCarry
Rapid Communications in Mass Spectrometry (2007) 21(9): 1546-1554
The Serine/Threonine/Tyrosine Phosphoproteome of the Model Bacterium Bacillus subtilis
Boris Macek, Ivan Mijakovic, Jesper V. Olsen, Florian Gnad, Chanchal Kumar, Peter R. Jensen, and Matthias Mann
Mol Cell Proteomics (2007) 6(4): 697-707
Mitochondrial Phosphoproteome Revealed by an Improved IMAC Method and MS/MS/MS
Jaeick Lee, Yingda Xu, Yue Chen, Robert Sprung, Sung Chan Kim, ShanhaiXie, and Yingming Zhao
Mol Cell Proteomics (2007) 6(4): 669-676
Low Energy Peptide Fragmentations in an ESI-Q-Tof Type Mass Spectrometer
Laetitia Mouls, Jean-Louis Aubagnac, Jean Martinez, and Christine Enjalbal
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1378-1391
The primary structure of a low-M(r) multiphosphorylated variant of beta-casein in equine milk
Miclo L, Girardet JM, Egito AS, Molle D, Martin P, Gaillard JL
Proteomics (2007) 7(8): 1327-1335
Identification of carbonylated proteins from enriched rat skeletal muscle mitochondria using affinity chromatography-stable isotope labeling and tandem mass spectrometry
Danni L. Meany, Hongwei Xie, LaDora V. Thompson, Edgar A. Arriaga, Timothy J. Griffin
PROTEOMICS (2007) 7(7): 1150-1163
Chip-based CE coupled to a quadrupole TOF mass spectrometer for the analysis of a glycopeptide
Yufang Zheng, Haifang Li, Zhihong Guo, Jin-Ming Lin, Zongwei Cai
ELECTROPHORESIS (2007) 28(9): 1305-1311
Simplification of Mass Spectral Analysis of Acidic Glycopeptides Using GlycoPep ID
Janet Irungu, Eden P. Go, Dilusha S. Dalpathado, and Heather Desaire
ANALYTICAL CHEMISTRY (2007) 79(8): 3065-3074
Concerted Experimental Approach for Sequential Mapping of Peptides and Phosphopeptides Using C18-Functionalized Magnetic Nanoparticles
He-Hsuan Hsiao, Hsin-Yu Hsieh, Chi-Chi Chou, Shu-Yu Lin, Andrew H.-J. Wang, and Kay-Hooi Khoo
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1313-1324
Proteomic methods for analysis of S-nitrosation
Kettenhofen NJ, Broniowska KA, Keszler A, Zhang Y, Hogg N.
J Chromatogr B Analyt Technol Biomed Life Sci Early Edition: published 25-Feb-2007
18O Labeling Method for Identification and Quantification of Succinimide in Proteins
Gang Xiao, Pavel V. Bondarenko, Jaby Jacob, Grace C. Chu, and Dirk Chelius
ANALYTICAL CHEMISTRY (2007) 79(7): 2714-2721
Comprehensive survey of p94/calpain 3 substrates by comparative proteomics - Possible regulation of protein synthesis by p94
Ono Y, Hayashi C, Doi N, Kitamura F, Shindo M, Kudo K, Tsubata T, Yanagida M, Sorimachi H.
Biotechnol J Early Edition: published 20-Mar-2007
Detection of transient protein-protein interactions by bimolecular fluorescence complementation: The Abl-SH3 case
Montse Morell, Alba Espargaró, Francesc X. Avilés, Salvador Ventura
PROTEOMICS (2007) 7(7): 1023-1036
A Draft of Protein Interactions in the Malaria Parasite P. falciparum
Stefan Wuchty and Jonathan J. Ipsaro
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1461-1470
HDM2-Binding Partners: Interaction with Translation Elongation Factor EF1
Rebecca Frum, Scott A. Busby, Mahesh Ramamoorthy, Sumitra Deb, Jeffrey Shabanowitz, Donald F. Hunt, and Swati P. Deb
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1410-1417
Catch-and-Release Reagents for Broadscale Quantitative Proteomics Analyses
Carlos A. Gartner, Joshua E. Elias, Corey E. Bakalarski, and Steven P. Gygi
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1482-1491
Proteomics Discovery of Metalloproteinase Substrates in the Cellular Context by iTRAQTM Labeling Reveals a Diverse MMP-2 Substrate Degradome
Richard A. Dean and Christopher M. Overall
Mol Cell Proteomics (2007) 6(4): 611-623
A novel quantitative proteomics reagent based on soluble nanopolymers
Guo M, Galan J, Tao WA.
Chem Commun (Camb) (2007) (12): 1251-3.
Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation
Peng Lu, Christine Vogel, Rong Wang, Xin Yao, Edward M Marcotte
Nat Biotech (2007) 25(1): 117-124
Relative Quantification of Stable Isotope Labeled Peptides Using a Linear Ion Trap-Orbitrap Hybrid Mass Spectrometer
John D. Venable, James Wohlschlegel, Daniel B. McClatchy, Sung Kyu Park, and John R. Yates, III
ANALYTICAL CHEMISTRY (2007) 79(8): 3056-3064
A study of reproducibility of guanidination-dimethylation labeling and liquid chromatography matrix-assisted laser desorption ionization mass spectrometry for relative proteome quantification
Ji C, Zhang N, Damaraju S, Damaraju VL, Carpenter P, Cass CE, Li L.
Anal Chim Acta (2007) 585(2): 219-26
Quantitative Proteomics Profiling of Sarcomere Associated Proteins in Limb and Extraocular Muscle Allotypes
Sven Fraterman, Ulrike Zeiger, Tejvir S. Khurana, Matthias Wilm, and Neal A. Rubinstein
Mol Cell Proteomics (2007) 6(4): 728-737
Approaches for systematic proteome exploration
Falk R, Ramstrom M, Stahl S, Hober S.
Biomol Eng Early Edition: published 6-Feb-2007
Proteomic methods for analysis of S-nitrosation
Kettenhofen NJ, Broniowska KA, Keszler A, Zhang Y, Hogg N.
J Chromatogr B Analyt Technol Biomed Life Sci Early Edition: published 25-Feb-2007
Reproducibility in Protein Profiling by MALDI-TOF Mass Spectrometry
Albrethsen J.
Clin Chem Early Edition: published 29-Mar-2007
Biochemical, biophysical, and proteomic approaches to study DNA helicases
Vindigni A.
Mol Biosyst (2007) 3(4): 266-74
The ins and outs of ATP-dependent chromatin remodeling in budding yeast: Biophysical and proteomic perspectives
van Vugt JJ, Ranes M, Campsteijn C, Logie C.
Biochim Biophys Acta (2007) 1769(3): 153-171
Fluorescent Proteins and Their Use in Marine Biosciences, Biotechnology, and Proteomics
Mocz G.
Mar Biotechnol (NY) Early Edition: published 19-Mar-2007
Exploring proteasome complexes by proteomic approaches
Oliver Drews, Chenggong Zong, Peipei Ping
PROTEOMICS (2007) 7(7): 1047-1058
Cardiovascular biomarkers: The state of the art in 2006
Jaffe AS.
Clin Chim Acta Early Edition: published 22-Feb-2007
The synaptic vesicle proteome
Burre J, Volknandt W.
J Neurochem Early Edition: published 9-Mar-2007
Proteomics in prostate cancer research
Hellstrom M, Lexander H, Franzen B, Egevad L.
Anal Quant Cytol Histol (2007) 29(1): 32-40
The Art and Practice of Systems Biology in Medicine: Mapping Patterns of Relationships
J. van der Greef, S. Martin, P. Juhasz, A. Adourian, T. Plasterer, E. R. Verheij, and R. N. McBurney
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1540-1559
Functional proteomics in Ciona intestinalis: A breakthrough in the exploration of the molecular and cellular mechanism of ascidian development
Inaba K, Nomura M, Nakajima A, Hozumi A.
Dev Dyn Early Edition: published 20-Mar-2007
Introduction to Chemical Proteomics for Drug Discovery and Development
Han SY, Hwan Kim S.
Arch Pharm (Weinheim) Early Edition: published 12-Mar-2007
How to comprehensively analyse proteins and how this influences nutritional research
Kussmann M.
Clin Chem Lab Med (2007) 45(3): 288-300
High-Throughput Proteomics Processing of Proteins in Polyacrylamide in a Multiwell Format
Edwin D. Cummings, Janet M. Brown, Siva T. Sarva, Robert H. Waldo, and George M. Hilliard
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1603-1608
Instrument design and characterization for high resolution MALDI-MS imaging of tissue sections
Pierre Chaurand, Kenneth E. Schriver, Richard M. Caprioli
Journal of Mass Spectrometry (2007) 42(4): 476-489
High Sensitivity Identification of Membrane Proteins by MALDI TOF-MASS Spectrometry Using Polystyrene Beads
Noura Bensalem, Sandrine Masscheleyn, Julien Mozo, Benoit Vallée, Franck Brouillard, Stéphanie Trudel, Daniel Ricquier, Aleksander Edelman, Ida Chiara Guerrera, and Bruno Miroux
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1595-1602
On-line coupling of SPE and CE-MS for peptide analysis
F. W. Alexander Tempels, Willy J. M. Underberg, Govert W. Somsen, Gerhardus J. de Jong
ELECTROPHORESIS (2007) 28(9): 1319-1326
Complexes between some lysine-containing peptides and crown ethers - electrospray ionization mass spectrometric study
Rafa? Fra?ski, Grzegorz Schroeder, Wojciech Kamysz, Pawel Niedzialkowski, Tadeusz Ossowski
Journal of Mass Spectrometry (2007) 42(4): 459-466
Comparison of proteomes in various human plasma preparations by two-dimensional gel electrophoresis
Kim HJ, Kim MR, So EJ, Kim CW.
J Biochem Biophys Methods Early Edition: published 20-Feb-2007
Identification of specific reachable molecular targets in human breast cancer using a versatile ex vivo proteomic method
Castronovo V, Kischel P, Guillonneau F, de Leval L, Defechereux T, De Pauw E, Neri D, Waltregny D
Proteomics (2007) 7(8): 1188-96
Biomarker clustering to address correlations in proteomic data
Scott M. Carlson, Amir Najmi, Harvey J. Cohen
PROTEOMICS (2007) 7(7): 1037-1046
Disulfide bond cleavages observed in SORI-CID of three nonapeptides complexed with divalent transition-metal cations
Romulus Mihalca, Yuri E. M. van der Burgt, Albert J. R. Heck, Ron M. A. Heeren
Journal of Mass Spectrometry (2007) 42(4): 450-458
Liquid Chromatography Electron Capture Dissociation Tandem Mass Spectrometry (LC-ECD-MS/MS) versus Liquid Chromatography Collision-induced Dissociation Tandem Mass Spectrometry (LC-CID-MS/MS) for the Identification of Proteins
Creese AJ, Cooper HJ.
J Am Soc Mass Spectrom Early Edition: published 8-Mar-2007
Multiple reaction monitoring for robust quantitative proteomic analysis of cellular signaling networks
Wolf-Yadlin A, Hautaniemi S, Lauffenburger DA, White FM.
Proc Natl Acad Sci U S A Early Edition: published 26-Mar-2007
Use of a preparative-scale, recirculating isoelectric trapping device for the isolation and enrichment of acidic proteins in bovine serum
Shave E, Vigh G.
J Chromatogr A Early Edition: published 4-Feb-2007
Detergents for the stabilization and crystallization of membrane proteins
Prive GG.
Methods (2007) 41(4): 388-97
Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation
Peng Lu, Christine Vogel, Rong Wang, Xin Yao, Edward M Marcotte
Nat Biotech (2007) 25(1): 117-124
Reproducibility in Protein Profiling by MALDI-TOF Mass Spectrometry
Albrethsen J.
Clin Chem Early Edition: published 29-Mar-2007
Relative Quantification of Stable Isotope Labeled Peptides Using a Linear Ion Trap-Orbitrap Hybrid Mass Spectrometer
John D. Venable, James Wohlschlegel, Daniel B. McClatchy, Sung Kyu Park, and John R. Yates, III
ANALYTICAL CHEMISTRY (2007) 79(8): 3056-3064
Direct Analysis and MALDI Imaging of Formalin-Fixed, Paraffin-Embedded Tissue Sections
R. Lemaire, A. Desmons, J. C. Tabet, R. Day, M. Salzet, and I. Fournier
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1295-1305
Selective Metabolite and Peptide Capture/Mass Detection Using Fluorous Affinity Tags
Eden P. Go, Wilasinee Uritboonthai, Junefredo V. Apon, Sunia A. Trauger, Anders Nordstrom, Grace O'Maille, Scott M. Brittain, Eric C. Peters, and Gary Siuzdak
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1492-1499
Detection of transient protein-protein interactions by bimolecular fluorescence complementation: The Abl-SH3 case
Montse Morell, Alba Espargaró, Francesc X. Avilés, Salvador Ventura
PROTEOMICS (2007) 7(7): 1023-1036
Fragmentation Characteristics of Collision-Induced Dissociation in MALDI TOF/TOF Mass Spectrometry
Jainab Khatun, Kevin Ramkissoon, and Morgan C. Giddings
ANALYTICAL CHEMISTRY (2007) 79(8): 3032-3040
A study of reproducibility of guanidination-dimethylation labeling and liquid chromatography matrix-assisted laser desorption ionization mass spectrometry for relative proteome quantification
Ji C, Zhang N, Damaraju S, Damaraju VL, Carpenter P, Cass CE, Li L.
Anal Chim Acta (2007) 585(2): 219-26
Carboxyl-Terminated Dendrimer-Coated Bioactive Interface for Protein Microarray: High-Sensitivity Detection of Antigen in Complex Biological Samples
Ajikumar PK, Ng JK, Tang YC, Lee JY, Stephanopoulos G, Too HP.
Langmuir Early Edition: published 28-Mar-2007
Global screening of protein chromatographic behavior on ion exchangers from a complex cell proteome Towards in silico downstream processing of bioproducts
Cabrera R, Fernandez-Lahore M.
J Chromatogr A Early Edition: published 16-Feb-2007
Quantitative Proteome Analysis of Barley Seeds Using Ruthenium(II)-tris-(bathophenanthroline-disulphonate) Staining
Katja Witzel, Giridara-Kumar Surabhi, Gottimukkala Jyothsnakumari, Chinta Sudhakar, Andrea Matros, and Hans-Peter Mock
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1325-1333
Comprehensive survey of p94/calpain 3 substrates by comparative proteomics - Possible regulation of protein synthesis by p94
Ono Y, Hayashi C, Doi N, Kitamura F, Shindo M, Kudo K, Tsubata T, Yanagida M, Sorimachi H.
Biotechnol J Early Edition: published 20-Mar-2007
Assessing Detection Methods for Gel-Based Proteomic Analyses
Lauren R. Harris, Matthew A. Churchward, R. Hussain Butt, and Jens R. Coorssen
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1418-1425
Simplified 2-D CE-MS mapping: Analysis of proteolytic digests
Guillaume L. Erny, Alejandro Cifuentes
ELECTROPHORESIS (2007) 28(9): 1335-1344
Methods for the purification of ubiquitinated Proteins
Emma Tomlinson, Naaventhan Palaniyappan, David Tooth, Robert Layfield
PROTEOMICS (2007) 7(7): 1016-1022
Introduction to Chemical Proteomics for Drug Discovery and Development
Han SY, Hwan Kim S.
Arch Pharm (Weinheim) Early Edition: published 12-Mar-2007
Low Energy Peptide Fragmentations in an ESI-Q-Tof Type Mass Spectrometer
Laetitia Mouls, Jean-Louis Aubagnac, Jean Martinez, and Christine Enjalbal
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1378-1391
CSF biomarker discovery using label-free nano-LC-MS based proteomic profiling: technical aspects
Huang JT, McKenna T, Hughes C, Leweke FM, Schwarz E, Bahn S.
J Sep Sci (2007) 30(2): 214-25
A novel quantitative proteomics reagent based on soluble nanopolymers
Guo M, Galan J, Tao WA.
Chem Commun (Camb) (2007) (12): 1251-3.
Catch-and-Release Reagents for Broadscale Quantitative Proteomics Analyses
Carlos A. Gartner, Joshua E. Elias, Corey E. Bakalarski, and Steven P. Gygi
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1482-1491
18O Labeling Method for Identification and Quantification of Succinimide in Proteins
Gang Xiao, Pavel V. Bondarenko, Jaby Jacob, Grace C. Chu, and Dirk Chelius
ANALYTICAL CHEMISTRY (2007) 79(7): 2714-2721
A robust purification strategy to accelerate membrane proteomics
Dobrovetsky E, Menendez J, Edwards AM, Koth CM.
Methods (2007) 41(4): 381-7
Concerted Experimental Approach for Sequential Mapping of Peptides and Phosphopeptides Using C18-Functionalized Magnetic Nanoparticles
He-Hsuan Hsiao, Hsin-Yu Hsieh, Chi-Chi Chou, Shu-Yu Lin, Andrew H.-J. Wang, and Kay-Hooi Khoo
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1313-1324
Comprehensive yeast proteome analysis using a capillary isoelectric focusing-based multidimensional separation platform coupled with ESI-MS/MS
Wang W, Guo T, Song T, Lee CS, Balgley BM
Proteomics (2007) 7(8): 1178-87
Book Reviews: Plant Proteomics: Methods and Protocols. By Herve Thiellement, Michel Zivy, Catherine Damerval and Valerie Mechin (Eds.)
Jesus V. Jorrin Novo
Proteomics (2007) 7(8): 1356
News: Desorption 2006 and mass spectrometry in Greece
Paul Vouros
Mass Spectrometry Reviews (2007) 26(3): 469-471
The HUPO Pre-Congress Proteomics Standards Initiative Workshop HUPO 5th Annual World Congress Long Beach, CA, USA 28 October-1 November 2006
Sandra Orchard, Andrew R. Jones, Christian Stephan, Pierre-Alain Binz
PROTEOMICS (2007) 7(7): 1006-1008
Proteomics for everyday use: Activities of the HUPO Brain Proteome Project during the 5th HUPO World Congress
Michael Hamacher, Christian Stephan, Martin Eisenacher, Andre van Hall, Katrin Marcus, Lennart Martens, Young Mok Park, Howard B. Gutstein, Friedrich Herberg, Helmut E. Meyer
PROTEOMICS (2007) 7(7): 1012-1015
Publication Committee Meeting HUPO 5th Annual World Congress Long Beach, CA, USA 30 October 2006
Sandra Orchard, Albert Heck, Mathias Uhlen, Peipei Ping
PROTEOMICS (2007) 7(7): 1009-1011
Structural and Functional Analysis of Hypothetical Proteins in Mouse Hippocampus from Two-Dimen-sional Gel Electrophoresis J. Proteome Res. 2007, 6, 711-723
Leila Afjehi-Sadat, Jae-Won Yang, Arnold Pollak, Dae-Won Kim, Soo-Young Choi, and Gert Lubec
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1615-1615
Research Profile: Imaging fixed and embedded tissues with MALDI MS
Linda Sage
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1240
New Products
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1244
Quality Assessment of Tandem Mass Spectra Based on Cumulative Intensity Normalization J. Proteome Res. 2006, 5 (12), 3241-3248
Seungjin Na and Eunok Paek
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1615-1615
Editorial: The utilization and impact of mass spectrometry across pharmaceutical research and development
Timothy R. Baker
Mass Spectrometry Reviews (2007) 26(3): 323
A Comparative Genomics Analysis of Codon Reassignments Reveals a Link with Mitochondrial Proteome Size and a Mechanism of Genetic Code Change Via Suppressor tRNAs
Massey SE, Garey JR.
J Mol Evol Early Edition: published 27-Mar-2007
Research Profile: The cervical–vaginal fluid proteome and possible biomarkers of preterm birth
Katie Cottingham
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1241-1242
Proteomic Identification of Actin-Derived Oligopeptides in Dry-Cured Ham
Sentandreu MA, Armenteros M, Calvete JJ, Ouali A, Aristoy MC, Toldra F.
J Agric Food Chem Early Edition: published 20-Mar-2007
Secreted Proteome Profiling in Human RPE Cell Cultures Derived from Donors with Age Related Macular Degeneration and Age Matched Healthy Donors J. Proteome Res. 2006, 5, 2599-2610
EunKyung An, Xiaoning Lu, Jessica Flippin, Joseph M. Devaney, Brian Halligan, Eric Hoffman, Karl Csaky, and Yetrib Hathout
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1615-1615
Peptides you can count on
John JM Bergeron, Michael Hallett
Nat Biotech (2007) 25(1): 61-62
Elevated Levels of Phosphorylated Fibrinogen--Iso-forms and Differential Expression of Other Post-Translationally Modified Proteins in the Plasma of Ovarian Cancer Patients J. Proteome Res. 2006, 5, 3318-3325
Yuko Ogata, Carrie J. Heppelmann, M. Cristine Charlesworth, Benjamin J. Madden, Melinda N. Miller, Kimberly R. Kalli, William A. Cilby, H. Robert Bergen III, Diana A. Saggese, and David C. Muddiman
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1615-1615
In-Source Decay Causes Artifacts in SELDI-TOF MS Spectra
Lars Ekblad, Bo Baldetorp, Mårten Fernö, Håkan Olsson, and Charlotte Bratt
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1609-1614
Currents: Assessing phosphopeptide isolation methods | Proteomics of Huntington’s disease | Large-scale phosphoproteomics studies with ETD | A photoactive semiconductor to digest proteins | Host proteins copurify with blood flukes
JOURNAL OF PROTEOME RESEARCH (2007) 6(4): 1237-1239
Selected reviews on mass spectrometric topics - CXXVIII
H. Budzikiewicz
Mass Spectrometry Reviews (2007) 26(3): 467-468