Volume 9; Issue 2

Journal of Proteome Research

Volume 9; Issue 2

1

Characterization of the Human Plasma Phosphoproteome Using Linear Ion Trap Mass Spectrometry and Multiple Search Engines

Carrascal, Montserrat, Gay, Marina, Ovelleiro, David, Casas, Vanessa, Gelpí, Emilio, Abian, Joaquin

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 397 KB

english, 2010

2

Repeatability and Reproducibility in Proteomic Identifications by Liquid Chromatography−Tandem Mass Spectrometry

Tabb, David L., Vega-Montoto, Lorenzo, Rudnick, Paul A., Variyath, Asokan Mulayath, Ham, Amy-Joan L., Bunk, David M., Kilpatrick, Lisa E., Billheimer, Dean D., Blackman, Ronald K., Cardasis, Helene L.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.32 MB

english, 2010

3

Comparison of Database Search Strategies for High Precursor Mass Accuracy MS/MS Data

Hsieh, Edward J., Hoopmann, Michael R., MacLean, Brendan, MacCoss, Michael J.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.85 MB

english, 2010

4

GlycoSpectrumScan: Fishing Glycopeptides from MS Spectra of Protease Digests of Human Colostrum sIgA

Deshpande, Nandan, Jensen, Pia H., Packer, Nicolle H., Kolarich, Daniel

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.15 MB

english, 2010

5

Thermus thermophilus Proteins That Are Differentially Expressed in Response to Growth Temperature and Their Implication in Thermoadaptation

Li, Hebin, Ji, Xinglai, Zhou, Zhidong, Wang, Yiqian, Zhang, Xiaobo

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.94 MB

english, 2010

6

Comparison of Extensive Protein Fractionation and Repetitive LC-MS/MS Analyses on Depth of Analysis for Complex Proteomes

Wang, Huan, Chang-Wong, Tony, Tang, Hsin-Yao, Speicher, David W.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.77 MB

english, 2010

7

Comprehensive Identification of Staurosporine-Binding Kinases in the Hepatocyte Cell Line HepG2 using Capture Compound Mass Spectrometry (CCMS)

Fischer, Jenny J., Graebner, Olivia Y., Dalhoff, Christian, Michaelis, Simon, Schrey, Anna K., Ungewiss, Jan, Andrich, Kathrin, Jeske, Danny, Kroll, Friedrich, Glinski, Mirko, Sefkow, Michael, Dreger,

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.73 MB

english, 2010

8

Single-Step Procedure for the Isolation of Proteins at Near-Native Conditions from Mammalian Tissue for Proteomic Analysis on Antibody Microarrays

Alhamdani, Mohamed Saiel Saeed, Schröder, Christoph, Werner, Jens, Giese, Nathalia, Bauer, Andrea, Hoheisel, Jörg D.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 3.63 MB

english, 2010

9

Proteomic Changes in the Photoreceptor Outer Segment upon Intense Light Exposure

Hajkova, Dagmar, Imanishi, Yoshikazu, Palamalai, Vikram, Rao, K. C. Sekhar, Yuan, Chao, Sheng, Quanhu, Tang, Haixu, Zeng, Rong, Darrow, Ruth M., Organisciak, Daniel T., Miyagi, Masaru

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.16 MB

english, 2010

10

Quantitative Organellar Proteomics Analysis of Rough Endoplasmic Reticulum from Normal and Acute Pancreatitis Rat Pancreas

Chen, Xuequn, Sans, Maria Dolors, Strahler, John R., Karnovsky, Alla, Ernst, Stephen A., Michailidis, George, Andrews, Philip C., Williams, John A.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.33 MB

english, 2010

11

Association of Immunosuppressant-Induced Protein Changes in the Rat Kidney with Changes in Urine Metabolite Patterns: A Proteo-Metabonomic Study

Klawitter, Jost, Klawitter, Jelena, Kushner, Erich, Jonscher, Karen, Bendrick-Peart, Jamie, Leibfritz, Dieter, Christians, Uwe, Schmitz, Volker

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.14 MB

english, 2010

12

Characterization of Urinary Biomarkers of Hepatocellular Carcinoma Using Magnetic Resonance Spectroscopy in a Nigerian Population

Shariff, Mohamed I. F., Ladep, Nimzing G., Cox, I. Jane, Williams, Horace R. T., Okeke, Edith, Malu, Abraham, Thillainayagam, Andrew V., Crossey, Mary M. E., Khan, Shahid A., Thomas, Howard C., Taylor

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 456 KB

english, 2010

13

Molecular Proteomics Imaging of Tumor Interfaces by Mass Spectrometry

Kang, Suki, Shim, Hyo Sup, Lee, Jong Sik, Kim, Dong Su, Kim, Hak Yong, Hong, Seong Hyun, Kim, Pan Soo, Yoon, Joo Heon, Cho, Nam Hoon

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.42 MB

english, 2010

14

Global Proteomic Analysis of the Insoluble, Soluble, and Supernatant Fractions of the Psychrophilic Archaeon Methanococcoides burtonii Part I: The Effect of Growth Temperature

Williams, Timothy J., Burg, Dominic W., Raftery, Mark J., Poljak, Anne, Guilhaus, Michael, Pilak, Oliver, Cavicchioli, Ricardo

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 3.44 MB

english, 2010

15

Activity-Based Proteome Profiling of Hepatoma Cells during Hepatitis C Virus Replication Using Protease Substrate Probes

Blais, David R., Brûlotte, Marc, Qian, Yiming, Bélanger, Sylvie, Yao, Shao Q., Pezacki, John Paul

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 5.00 MB

english, 2010

16

Proteomic Analysis of Src Family Kinases Signaling Complexes in Golgi/Endosomal Fractions Using a Site-Selective Anti-Phosphotyrosine Antibody: Identification of LRP1-Insulin Receptor Complexes

Bilodeau, Nicolas, Fiset, Annie, Boulanger, Marie-Chloé, Bhardwaj, Sanjeev, Winstall, Éric, Lavoie, Josée N., Faure, Robert L.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.78 MB

english, 2010

17

Target-Decoy with Mass Binning: A Simple and Effective Validation Method for Shotgun Proteomics Using High Resolution Mass Spectrometry

Joo, Jong Wha J., Na, Seungjin, Baek, Je-Hyun, Lee, Cheolju, Paek, Eunok

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 867 KB

english, 2010

18

Inhibition of Protein Phosphorylation in MIA Pancreatic Cancer Cells: Confluence of Metabolic and Signaling Pathways

Zhang, Hengwei, Cao, Rui, Lee, Wai-Nang Paul, Deng, Caishu, Zhao, Yingchun, Lappe, Joan, Recker, Robert, Yen, Yun, Wang, Qi, Tsai, Ming-Ying, Go, Vay Liang, Xiao, Gary Guishan

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.87 MB

english, 2010

19

Novel Ser/Thr Protein Phosphatase 5 (PP5) Regulated Targets during DNA Damage Identified by Proteomics Analysis

Ham, Bryan M., Jayachandran, Hemalatha, Yang, Feng, Jaitly, Navdeep, Polpitiya, Ashoka D., Monroe, Matthew E., Wang, Ling, Zhao, Rui, Purvine, Samuel O., Livesay, Eric A., Camp, David G., Rossie, Sand

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.50 MB

english, 2010

20

Analyzing the Hydrophobic Proteome of the Antarctic Archaeon Methanococcoides burtonii Using Differential Solubility Fractionation

Burg, Dominic W., Lauro, Federico M., Williams, Timothy J., Raftery, Mark J., Guilhaus, Michael, Cavicchioli, Ricardo

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.43 MB

english, 2010

21

Characterization of the Liver Tissue Interstitial Fluid (TIF) Proteome Indicates Potential for Application in Liver Disease Biomarker Discovery

Sun, Wei, Ma, Jie, Wu, Songfeng, Yang, Dong, Yan, Yujuan, Liu, Kehui, Wang, Jinglan, Sun, Longqin, Chen, Ning, Wei, Handong, Zhu, Yunping, Xing, Baocai, Zhao, Xiaohang, Qian, Xiaohong, Jiang, Ying, He

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 3.17 MB

english, 2010

22

Mass Spectrometry-Based Identification of Y745 of Vav1 as a Tyrosine Residue Crucial in Maturation of Acute Promyelocytic Leukemia-Derived Cells

Bertagnolo, Valeria, Grassilli, Silvia, D’Aguanno, Simona, Brugnoli, Federica, Bavelloni, Alberto, Faenza, Irene, Nika, Ervin, Urbani, Andrea, Cocco, Lucio, Capitani, Silvano

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.59 MB

english, 2010

23

Global Analysis of a Plasmid-Cured Shigella flexneri Strain: New Insights into the Interaction between the Chromosome and a Virulence Plasmid

Zhu, Li, Liu, Xiankai, Zheng, Xuexue, Bu, Xin, Zhao, Ge, Xie, Chaohua, Zhang, Jingfei, Li, Na, Feng, Erling, Wang, Jie, Jiang, Yongqiang, Huang, Peitang, Wang, Hengliang

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.67 MB

english, 2010

24

Evaluation of Established Coronary Heart Disease on the Basis of HDL and Non-HDL NMR Lipid Profiling

Kostara, Christina E., Papathanasiou, Athanasios, Cung, Manh Thong, Elisaf, Moses S., Goudevenos, John, Bairaktari, Eleni T.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.29 MB

english, 2010

25

Quantitative Profiling and Identification of Outer Membrane Proteins of β-Lactam Resistant Strain of Acinetobacter baumannii

Vashist, Jitendra, Tiwari, Vishvanath, Kapil, Arti, Rajeswari, Moganty R.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.01 MB

english, 2010

26

Identification of Non-HLA Antigens Targeted by Alloreactive Antibodies in Patients Undergoing Chronic Hemodialysis

Bilalic, Senada, Veitinger, Michael, Ahrer, Karl-Heinz, Gruber, Viktoria, Zellner, Maria, Brostjan, Christine, Bartel, Gregor, Cejka, Daniel, Reichel, Christian, Jordan, Veronika, Burghuber, Christoph

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.97 MB

english, 2010

27

Global Analysis of TDP-43 Interacting Proteins Reveals Strong Association with RNA Splicing and Translation Machinery

Freibaum, Brian D., Chitta, Raghu K., High, Anthony A., Taylor, J. Paul

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 3.34 MB

english, 2010

28

A Hybrid, de Novo Based, Genome-Wide Database Search Approach Applied to the Sea Urchin Neuropeptidome

Menschaert, Gerben, Vandekerckhove, Tom T. M., Baggerman, Geert, Landuyt, Bart, Sweedler, Jonathan V., Schoofs, Liliane, Luyten, Walter, Van Criekinge, Wim

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.42 MB

english, 2010

29

Proteomic Analysis of Human U937 Cell Line Activation Mediated by Haemophilus influenzae Type b P2 Porin and Its Surface-Exposed Loop 7

Severino, Valeria, Chambery, Angela, Vitiello, Mariateresa, Cantisani, Marco, Galdiero, Stefania, Galdiero, Massimiliano, Malorni, Livia, Di Maro, Antimo, Parente, Augusto

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.79 MB

english, 2010

30

Pooling Aqueous Humor Samples: Bias in 2D-LC-MS/MS Strategy?

Escoffier, Patricia, Paris, Luc, Bodaghi, Bahram, Danis, Martin, Mazier, Dominique, Marinach-Patrice, Carine

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 486 KB

english, 2010

31

Identification of Sortase A (SrtA) Substrates in Streptococcus uberis : Evidence for an Additional Hexapeptide (LPXXXD) Sorting Motif

Egan, Sharon A, Kurian, Dominic, Ward, Philip N., Hunt, Lawrence, Leigh, James A.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.13 MB

english, 2010

32

Oxidative Stress Studies in Yeast with a Frataxin Mutant: A Proteomics Perspective

Kim, Jin-Hee, Sedlak, Miroslav, Gao, Qiang, Riley, Catherine P., Regnier, Fred E., Adamec, Jiri

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 3.26 MB

english, 2010

33

Metabonomics in Ulcerative Colitis: Diagnostics, Biomarker Identification, And Insight into the Pathophysiology

Bjerrum, Jacob T., Nielsen, Ole H., Hao, Fuhua, Tang, Huiru, Nicholson, Jeremy K., Wang, Yulan, Olsen, Jørgen

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.90 MB

english, 2010

34

Stoichiometric Quantification of Akt Phosphorylation Using LC-MS/MS

Atrih, Abdelmadjid, Turnock, Dan, Sellar, Grant, Thompson, Alastair, Feuerstein, Giora, Ferguson, Michael A. J., Huang, Jeffrey T.-J.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.94 MB

english, 2010

35

Label-Free Quantitation of Phosphopeptide Changes During Rat Sperm Capacitation

Baker, Mark A., Smith, Nathan D., Hetherington, Louise, Taubman, Kristy, Graham, Mark E., Robinson, Phillip J., Aitken, R. John

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.54 MB

english, 2010

36

Kolmogorov−Smirnov Scores and Intrinsic Mass Tolerances for Peptide Mass Fingerprinting

Jain, Rachana, Wagner, Michael

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 523 KB

english, 2010

37

Unbiased Statistical Analysis for Multi-Stage Proteomic Search Strategies

Everett, Logan J., Bierl, Charlene, Master, Stephen R.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.18 MB

english, 2010

38

Mass Spectral Analysis of Neuropeptide Expression and Distribution in the Nervous System of the Lobster Homarus americanus

Chen, Ruibing, Jiang, Xiaoyue, Prieto Conaway, Maria C., Mohtashemi, Iman, Hui, Limei, Viner, Rosa, Li, Lingjun

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 5.27 MB

english, 2010

39

Proteomic Identification of Differentially Expressed Proteins in the Ligon lintless Mutant of Upland Cotton ( Gossypium hirsutum L.)

Zhao, Pi-Ming, Wang, Li-Li, Han, Li-Bo, Wang, Juan, Yao, Yuan, Wang, Hai-Yun, Du, Xiong-Ming, Luo, Yuan-Ming, Xia, Gui-Xian

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.76 MB

english, 2010

40

Verification of Biomarkers for Diabetic Retinopathy by Multiple Reaction Monitoring

Kim, Kyunggon, Kim, Sang Jin, Yu, Hyeong Gon, Yu, Jiyoung, Park, Kyong Soo, Jang, In-Jin, Kim, Youngsoo

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 3.79 MB

english, 2010

41

Extracellular Remodelling During Oncogenic Ras-Induced Epithelial-Mesenchymal Transition Facilitates MDCK Cell Migration

Mathias, Rommel A., Chen, Yuan-Shou, Wang, Bo, Ji, Hong, Kapp, Eugene A., Moritz, Robert L., Zhu, Hong-Jian, Simpson, Richard J.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.56 MB

english, 2010

42

Multivariate Modeling and Prediction of Breast Cancer Prognostic Factors Using MR Metabolomics

Giskeødegård, Guro F., Grinde, Maria T., Sitter, Beathe, Axelson, David E., Lundgren, Steinar, Fjøsne, Hans E., Dahl, Steinar, Gribbestad, Ingrid S., Bathen, Tone F.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.58 MB

english, 2010

43

A P 4 -ATPase Protein Interaction Network Reveals a Link between Aminophospholipid Transport and Phosphoinositide Metabolism

Puts, Catheleyne F., Lenoir, Guillaume, Krijgsveld, Jeroen, Williamson, Patrick, Holthuis, Joost C. M.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.07 MB

english, 2010

44

Trypano-PPI: A Web Server for Prediction of Unique Targets in Trypanosome Proteome by using Electrostatic Parameters of Protein−protein Interactions

Rodriguez-Soca, Yamilet, Munteanu, Cristian R., Dorado, Julián, Pazos, Alejandro, Prado-Prado, Francisco J., González-Díaz, Humberto

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 3.50 MB

english, 2010

45

Quantitative Proteomic Analysis of Sulfolobus solfataricus Membrane Proteins

Pham, Trong Khoa, Sierocinski, Pawel, van der Oost, John, Wright, Phillip C.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 940 KB

english, 2010

46

Characterization of the Insoluble Proteome of Lactococcus lactis by SDS-PAGE LC-MS/MS Leads to the Identification of New Markers of Adaptation of the Bacteria to the Mouse Digestive Tract

Beganović, Jasna, Guillot, Alain, van de Guchte, Maarten, Jouan, Anne, Gitton, Christophe, Loux, Valentin, Roy, Karine, Huet, Sylvie, Monod, Hervé, Monnet, Véronique

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.61 MB

english, 2010

47

Quantitative Proteomic Analysis Reveals the Perturbation of Multiple Cellular Pathways in HL-60 Cells Induced by Arsenite Treatment

Xiong, Lei, Wang, Yinsheng

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.28 MB

english, 2010

48

An LC-IMS-MS Platform Providing Increased Dynamic Range for High-Throughput Proteomic Studies

Baker, Erin Shammel, Livesay, Eric A., Orton, Daniel J., Moore, Ronald J., Danielson, William F., Prior, David C., Ibrahim, Yehia M., LaMarche, Brian L., Mayampurath, Anoop M., Schepmoes, Athena A., H

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 3.30 MB

english, 2010

49

Global Proteomic Analysis of the Insoluble, Soluble, and Supernatant Fractions of the Psychrophilic Archaeon Methanococcoides burtonii Part II: The Effect of Different Methylated Growth Substrates

Williams, Timothy J., Burg, Dominic W., Ertan, Haluk, Raftery, Mark J., Poljak, Anne, Guilhaus, Michael, Cavicchioli, Ricardo

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.43 MB

english, 2010

50

Phosphoprotein changes during sperm capacitation

Cassiday, Laura

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.52 MB

english, 2010

51

HUPO’s Effort To Define the Liver Proteome †

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 109 KB

english, 2010

52

Phosphoproteome Analysis of Rat L6 Myotubes Using Reversed-Phase C18 Prefractionation and Titanium Dioxide Enrichment

Hou, Junjie, Cui, Ziyou, Xie, Zhensheng, Xue, Peng, Wu, Peng, Chen, Xiulan, Li, Jing, Cai, Tanxi, Yang, Fuquan

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.31 MB

english, 2010

53

Neurotrophic Effects of Tianeptine on Hippocampal Neurons: A Proteomic Approach

Chu, Chin-Chen, Wang, Jhi-Joung, Chen, Kuan-Ting, Shieh, Ja-Ping, Wang, Li-Kai, Shui, Hao-Ai, Ho, Shung-Tai

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.34 MB

english, 2010

54

Assessment of the Reproducibility of Random Hexapeptide Peptide Library-Based Protein Normalization

Dwivedi, Ravi C., Krokhin, Oleg V., Cortens, John P., Wilkins, John A.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.95 MB

english, 2010

55

Temporal Proteomic Analysis Reveals Continuous Impairment of Intestinal Development in Neonatal Piglets with Intrauterine Growth Restriction

Wang, Xiaoqiu, Wu, Weizong, Lin, Gang, Li, Defa, Wu, Guoyao, Wang, Junjun

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.23 MB

english, 2010

56

Identification and Confirmation of Biomarkers Using an Integrated Platform for Quantitative Analysis of Glycoproteins and Their Glycosylations

Liu, Yashu, He, Jintang, Li, Chen, Benitez, Ricardo, Fu, Sherry, Marrero, Jorge, Lubman, David M.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 2.72 MB

english, 2010