Volume 8; Issue 11

Journal of Proteome Research

Volume 8; Issue 11

1

Complex Network Spectral Moments for ATCUN Motif DNA Cleavage: First Predictive Study on Proteins of Human Pathogen Parasites

Munteanu, Cristian R., Vázquez, José M., Dorado, Julián, Sierra, Alejandro Pazos, Sánchez-González, Ángeles, Prado-Prado, Francisco J., González-Díaz, Humberto

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.62 MB

english, 2009

2

Variations of Protein Levels in Human Amniotic Fluid Stem Cells CD117/2 Over Passages 5−25

Chen, Wei-Qiang, Siegel, Nicol, Li, Lin, Pollak, Arnold, Hengstschläger, Markus, Lubec, Gert

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.18 MB

english, 2009

3

Simultaneous Isolation of DNA, RNA, and Proteins for Genetic, Epigenetic, Transcriptomic, and Proteomic Analysis

Radpour, Ramin, Sikora, Michal, Grussenmeyer, Thomas, Kohler, Corina, Barekati, Zeinab, Holzgreve, Wolfgang, Lefkovits, Ivan, Zhong, Xiao Yan

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 4.02 MB

english, 2009

4

From Midbody Protein−Protein Interaction Network Construction to Novel Regulators in Cytokinesis

Chen, Tzu-Chi, Lee, Sheng-An, Hong, Tse-Ming, Shih, Jin-Yuan, Lai, Jin-Mei, Chiou, Hsin-Ying, Yang, Shuenn-Chen, Chan, Chen-Hsiung, Kao, Cheng-Yan, Yang, Pan-Chyr, Huang, Chi-Ying F.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.97 MB

english, 2009

5

Mapping the Phosphorylation Sites of Ulk1

Dorsey, Frank C., Rose, Kristie L., Coenen, Silvia, Prater, Stephanie M., Cavett, Valerie, Cleveland, John L., Caldwell-Busby, Jennifer

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 600 KB

english, 2009

6

Differential Secreted Proteome Approach in Murine Model for Candidate Biomarker Discovery in Colon Cancer

Rangiah, Kannan, Tippornwong, Montri, Sangar, Vineet, Austin, David, Tétreault, Marie-Pier, Rustgi, Anil K., Blair, Ian A., Yu, Kenneth H.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.31 MB

english, 2009

7

iTRAQ Underestimation in Simple and Complex Mixtures: “The Good, the Bad and the Ugly”

Ow, Saw Yen, Salim, Malinda, Noirel, Josselin, Evans, Caroline, Rehman, Ishtiaq, Wright, Phillip C.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 295 KB

english, 2009

8

Wound Exudate as a Proteomic Window to Reveal Different Mechanisms of Tissue Damage by Snake Venom Toxins

Escalante, Teresa, Rucavado, Alexandra, Pinto, Antonio F. M., Terra, Renata M. S., Gutiérrez, José María, Fox, Jay W.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 8.44 MB

english, 2009

9

Proteome Analysis of an Attenuated Francisella tularensis dsbA Mutant: Identification of Potential DsbA Substrate Proteins

Straskova, Adela, Pavkova, Ivona, Link, Marek, Forslund, Anna-Lena, Kuoppa, Kerstin, Noppa, Laila, Kroca, Michal, Fucikova, Alena, Klimentova, Jana, Krocova, Zuzana, Forsberg, Åke, Stulik, Jiri

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.24 MB

english, 2009

10

Identification of Protein Clusters Predictive of Response to Chemotherapy in Breast Cancer Patients

Cortesi, Laura, Barchetti, Andrea, De Matteis, Elisabetta, Rossi, Elena, Della Casa, Lara, Marcheselli, Luigi, Tazzioli, Giovanni, Lazzaretti, Maria Grazia, Ficarra, Guido, Federico, Massimo, Iannone,

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 6.54 MB

english, 2009

11

Analytical Error Reduction Using Single Point Calibration for Accurate and Precise Metabolomic Phenotyping

van der Kloet, Frans M., Bobeldijk, Ivana, Verheij, Elwin R., Jellema, Renger H.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.91 MB

english, 2009

12

Comprehensive Mapping of Post-Translational Modifications on Synaptic, Nuclear, and Histone Proteins in the Adult Mouse Brain

Tweedie-Cullen, Ry Y., Reck, Johannes M., Mansuy, Isabelle M.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 12.78 MB

english, 2009

13

The Pollen Organelle Membrane Proteome Reveals Highly Spatial−Temporal Dynamics during Germination and Tube Growth of Lily Pollen

Pertl, Heidi, Schulze, Waltraud X., Obermeyer, Gerhard

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.67 MB

english, 2009

14

Protein Quantification in Label-Free LC-MS Experiments

Clough, Timothy, Key, Melissa, Ott, Ilka, Ragg, Susanne, Schadow, Gunther, Vitek, Olga

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.07 MB

english, 2009

15

Analysis of the Human Seminal Plasma Glycome Reveals the Presence of Immunomodulatory Carbohydrate Functional Groups

Pang, Poh-Choo, Tissot, Bérangère, Drobnis, Erma Z., Morris, Howard R., Dell, Anne, Clark, Gary F.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 5.40 MB

english, 2009

16

Scanning the Cell Surface Proteome of Cancer Cells and Identification of Metastasis-Associated Proteins Using a Subtractive Immunization Strategy

Rasmussen, Nicolaj, Ditzel, Henrik J.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 3.60 MB

english, 2009

17

Exploring the Complementary Selectivity of Immunocapture and MS Detection for the Differentiation between hCG Isoforms in Clinically Relevant Samples

Lund, Hanne, Torsetnes, Silje Bøen, Paus, Elisabeth, Nustad, Kjell, Reubsaet, Léon, Halvorsen, Trine Grønhaug

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.44 MB

english, 2009

18

SherLoc2: A High-Accuracy Hybrid Method for Predicting Subcellular Localization of Proteins

Briesemeister, Sebastian, Blum, Torsten, Brady, Scott, Lam, Yin, Kohlbacher, Oliver, Shatkay, Hagit

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 97 KB

english, 2009

19

In vivo Phosphoproteome of Human Skeletal Muscle Revealed by Phosphopeptide Enrichment and HPLC−ESI−MS/MS

Højlund, Kurt, Bowen, Benjamin P., Hwang, Hyonson, Flynn, Charles R., Madireddy, Lohith, Geetha, Thangiah, Langlais, Paul, Meyer, Christian, Mandarino, Lawrence J., Yi, Zhengping

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 583 KB

english, 2009

20

Differential Proteome Analysis of Host Cells Infected with Porcine Circovirus Type 2

Zhang, Xin, Zhou, Jiyong, Wu, Yongping, Zheng, Xiaojuan, Ma, Guangpeng, Wang, Zhongtian, Jin, Yulan, He, Jialing, Yan, Yan

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 3.15 MB

english, 2009

21

Proteomic Analysis Reveals a Synergistic Mechanism of Fluconazole and Berberine against Fluconazole-Resistant Candida albicans : Endogenous ROS Augmentation

Xu, Yi, Wang, Yan, Yan, Lan, Liang, Rong-Mei, Dai, Bao-Di, Tang, Ren-Jie, Gao, Ping-Hui, Jiang, Yuan-Ying

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.00 MB

english, 2009

22

The Benefit of Combining nLC-MALDI-Orbitrap MS Data with nLC-MALDI-TOF/TOF Data for Proteomic Analyses Employing Elastase

Rietschel, Benjamin, Baeumlisberger, Dominic, Arrey, Tabiwang N., Bornemann, Sandra, Rohmer, Marion, Schuerken, Malte, Karas, Michael, Meyer, Bjoern

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.68 MB

english, 2009

23

Proteomic Profiling of Cervical and Lumbar Spinal Cord Reveals Potential Protective Mechanisms in the Wobbler Mouse, a Model of Motor Neuron Degeneration

Bastone, Antonio, Fumagalli, Elena, Bigini, Paolo, Perini, Pietro, Bernardinello, Davide, Cagnotto, Alfredo, Mereghetti, Ilario, Curti, Daniela, Salmona, Mario, Mennini, Tiziana

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.50 MB

english, 2009

24

Identification of Proteinaceous Inhibitors of a Cysteine Proteinase (an Arg-Specific Gingipain) from Porphyromonas gingivalis in Rice Grain, Using Targeted-Proteomics Approaches

Taiyoji, Mayumi, Shitomi, Yasuyuki, Taniguchi, Masayuki, Saitoh, Eiichi, Ohtsubo, Sadami

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 4.47 MB

english, 2009

25

Identification of Two Plastid Proteins in the Dinoflagellate Alexandrium affine That Are Substantially Down-Regulated by Nitrogen-Depletion

Lee, Fred Wang-Fat, Morse, David, Lo, Samuel Chun-Lap

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.54 MB

english, 2009

26

MCP ups the ante by mandating raw-data deposition

Cottingham, Katie

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.32 MB

english, 2009

27

Identification of Tear Fluid Biomarkers in Dry Eye Syndrome Using iTRAQ Quantitative Proteomics

Zhou, Lei, Beuerman, Roger W., Chan, Choi Mun, Zhao, Shao Zhen, Li, Xiao Rong, Yang, He, Tong, Louis, Liu, Shouping, Stern, Michael E., Tan, Donald

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 4.09 MB

english, 2009

28

Mouse-Specific Tandem IgY7-SuperMix Immunoaffinity Separations for Improved LC-MS/MS Coverage of the Plasma Proteome

Zhou, Jian-Ying, Petritis, Brianne O., Petritis, Konstantinos, Norbeck, Angela D., Weitz, Karl K., Moore, Ronald J., Camp, David G., Kulkarni, Rohit N., Smith, Richard D., Qian, Wei-Jun

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.97 MB

english, 2009

29

Effect of Peptide-to-TiO 2 Beads Ratio on Phosphopeptide Enrichment Selectivity

Li, Qing-run, Ning, Zhi-bin, Tang, Jia-shu, Nie, Song, Zeng, Rong

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.07 MB

english, 2009

30

Avoiding Nonspecific Interactions in Studies of the Plasma Proteome: Practical Solutions to Prevention of Nonspecific Interactions for Label-Free Detection of Low-Abundance Plasma Proteins

Richens, Joanna L., Lunt, Elizabeth A. M., Sanger, Daniel, McKenzie, Graeme, O’Shea, Paul

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.86 MB

english, 2009

31

Proteomic Identification of Caldesmon as a Physiological Substrate of Proprotein Convertase 6 in Human Uterine Decidual Cells Essential for Pregnancy Establishment

Kilpatrick, Lynette M., Stephens, Andrew N., Hardman, Belinda M., Salamonsen, Lois A., Li, Ying, Stanton, Peter G., Nie, Guiying

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 4.74 MB

english, 2009

32

In-Depth Profiling of Post-Translational Modifications on the Related Transcription Factor Complexes TFIID and SAGA

Mischerikow, Nikolai, Spedale, Gianpiero, Altelaar, A. F. Maarten, Timmers, H. Th. Marc, Pijnappel, W. W. M. Pim, Heck, Albert J. R.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.86 MB

english, 2009

33

Identifying Protein Complexes Using Hybrid Properties

Chen, Lei, Shi, Xiaohe, Kong, Xiangyin, Zeng, Zhenbing, Cai, Yu-Dong

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 669 KB

english, 2009

34

One-Pot Shotgun Quantitative Mass Spectrometry Characterization of Histones

Plazas-Mayorca, Mariana D., Zee, Barry M., Young, Nicolas L., Fingerman, Ian M., LeRoy, Gary, Briggs, Scott D., Garcia, Benjamin A.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 953 KB

english, 2009

35

Carbohydrate Cluster Microarrays Fabricated on Three-Dimensional Dendrimeric Platforms for Functional Glycomics Exploration

Zhou, Xichun, Turchi, Craig, Wang, Denong

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.27 MB

english, 2009

36

Proteomics Analysis Reveals Novel Components in the Detergent-Insoluble Subproteome in Alzheimer’s Disease

Gozal, Yair M., Duong, Duc M., Gearing, Marla, Cheng, Dongmei, Hanfelt, John J., Funderburk, Christopher, Peng, Junmin, Lah, James J., Levey, Allan I.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.90 MB

english, 2009

37

iTRAQ gets put to the test

Perkel, Jeffrey M.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 182 KB

english, 2009

38

Correlation of Multiple Peptide Mass Spectra for Phosphoprotein Identification

Feng, Jian, Garrett, Wesley M., Naiman, Daniel Q., Cooper, Bret

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.52 MB

english, 2009

39

Mechanistic Aspects and Novel Biomarkers of Responder and Non-Responder Phenotypes in Galactosamine-Induced Hepatitis

Coen, Muireann, Want, Elizabeth J., Clayton, T. Andrew, Rhode, Cynthia M., Hong, Young Shick, Keun, Hector C., Cantor, Glenn H., Metz, Alan L., Robertson, Donald G., Reily, Michael D., Holmes, Elaine,

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 4.38 MB

english, 2009

40

Proteomic Analysis of Malignant B-Cell Derived Microparticles Reveals CD148 as a Potentially Useful Antigenic Biomarker for Mantle Cell Lymphoma Diagnosis

Miguet, Laurent, Béchade, Guillaume, Fornecker, Luc, Zink, Estelle, Felden, Claire, Gervais, Carine, Herbrecht, Raoul, Van Dorsselaer, Alain, Mauvieux, Laurent, Sanglier-Cianferani, Sarah

Journal:

Journal of Proteome Research

Year:

2009

File:

PDF, 52 KB

2009

41

Reduced Expression of Lamin A/C Results in Modified Cell Signaling and Metabolism Coupled with Changes in Expression of Structural Proteins

Chen, Songbi, Martin, Catherine, Maya-Mendoza, Apolinar, Tang, Chi W., Lovrić, Josip, Sims, Paul F. G., Jackson, Dean A.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 5.19 MB

english, 2009

42

Anxa2 Plays a Critical Role in Enhanced Invasiveness of the Multidrug Resistant Human Breast Cancer Cells

Zhang, Fei, Zhang, Lin, Zhang, Bin, Wei, Xiyin, Yang, Yi, Qi, Robert Z., Ying, Guoguang, Zhang, Ning, Niu, Ruifang

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 4.28 MB

english, 2009

43

Motility and Protein Phosphorylation in Healthy and Asthenozoospermic Sperm

Chan, Chying-Chyuan, Shui, Hao-Ai, Wu, Ching-Hsiang, Wang, Chih-Yuan, Sun, Guang-Huan, Chen, Han-Min, Wu, Gwo-Jang

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 3.50 MB

english, 2009

44

Site Specific Phosphorylation of Insulin-Like Growth Factor Binding Protein-1 (IGFBP-1) for Evaluating Clinical Relevancy in Fetal Growth Restriction

Abu Shehab, Majida, Inoue, Shinobu, Han, Victor K. M., Gupta, Madhulika B.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.22 MB

english, 2009

45

Quantitative Analysis of Age Specific Variation in the Abundance of Human Female Parotid Salivary Proteins

Ambatipudi, Kiran S., Lu, Bingwen, Hagen, Fred K, Melvin, James E., Yates, John R.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.99 MB

english, 2009

46

A Modified KESTREL Search Reveals a Basophilic Substrate Consensus for the Saccharomyces cerevisiae Npr1 Protein Kinase

Gander, Stefan, Martin, Dietmar, Hauri, Simon, Moes, Suzette, Poletto, Giorgia, Pagano, Mario A., Marin, Oriano, Meggio, Flavio, Jenoe, Paul

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 4.80 MB

english, 2009

47

Proteome Analysis of Lactobacillus rhamnosus GG Using 2-D DIGE and Mass Spectrometry Shows Differential Protein Production in Laboratory and Industrial-Type Growth Media

Koskenniemi, Kerttu, Koponen, Johanna, Kankainen, Matti, Savijoki, Kirsi, Tynkkynen, Soile, de Vos, Willem M., Kalkkinen, Nisse, Varmanen, Pekka

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.58 MB

english, 2009

48

Modified Spectral Count Index (mSCI) for Estimation of Protein Abundance by Protein Relative Identification Possibility (RIPpro): A New Proteomic Technological Parameter

Sun, Aihua, Zhang, Jiyang, Wang, Chunping, Yang, Dong, Wei, Handong, Zhu, Yunping, Jiang, Ying, He, Fuchu

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 758 KB

english, 2009

49

Human Serum Metabonomic Analysis Reveals Progression Axes for Glucose Intolerance and Insulin Resistance Statuses

Zhang, Xiuying, Wang, Yulan, Hao, Fuhua, Zhou, Xianghai, Han, Xueyao, Tang, Huiru, Ji, Linong

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.25 MB

english, 2009

50

Salivary proteome changes as women age

Cassiday, Laura

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.90 MB

english, 2009

51

Mass Spectrometry Characterization of Species-Specific Peptides from Arginine Kinase for the Identification of Commercially Relevant Shrimp Species

Ortea, Ignacio, Cañas, Benito, Gallardo, José M.

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.26 MB

english, 2009

52

An LC-MS-Based Metabolomics Approach for Exploring Urinary Metabolome Modifications after Cocoa Consumption

Llorach, Rafael, Urpi-Sarda, Mireia, Jauregui, Olga, Monagas, Maria, Andres-Lacueva, Cristina

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 2.35 MB

english, 2009

53

Omics Analyses Reveal a Potential Link between Hormone-Sensitive Lipase and Polyamine Metabolism

Fernandez, Céline, Krogh, Morten, Wårell, Kristofer, Alm, Kersti, Oredsson, Stina, Persson, Lo, James, Peter, Holm, Cecilia

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.56 MB

english, 2009