Volume 12; Issue 7

Journal of Proteome Research

Volume 12; Issue 7

1

Comprehensive Proteomic Analysis of Trypanosoma cruzi Epimastigote Cell Surface Proteins by Two Complementary Methods

Queiroz, Rayner M. L., Charneau, Sébastien, Motta, Flávia N., Santana, Jaime M., Roepstorff, Peter, Ricart, Carlos A. O.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 2.20 MB

english, 2013

2

Blood Plasma Reference Material: A Global Resource for Proteomic Research

Malm, Johan, Danmyr, Pia, Nilsson, Rolf, Appelqvist, Roger, Végvári, Ákos, Marko-Varga, György

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.12 MB

english, 2013

3

Evaluation and Optimization of Mass Spectrometric Settings during Data-dependent Acquisition Mode: Focus on LTQ-Orbitrap Mass Analyzers

Kalli, Anastasia, Smith, Geoffrey T., Sweredoski, Michael J., Hess, Sonja

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 3.10 MB

english, 2013

4

Proteomic Analysis Reveals Novel Extracellular Virulence-Associated Proteins and Functions Regulated by the Diffusible Signal Factor (DSF) in Xanthomonas oryzae pv. oryzicola

Qian, Guoliang, Zhou, Yijing, Zhao, Yancun, Song, Zhiwei, Wang, Suyan, Fan, Jiaqin, Hu, Baishi, Venturi, Vittorio, Liu, Fengquan

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 4.31 MB

english, 2013

5

Mapping Proteolytic Processing in the Secretome of Gastric Cancer-Associated Myofibroblasts Reveals Activation of MMP-1, MMP-2, and MMP-3

Holmberg, Christopher, Ghesquière, Bart, Impens, Francis, Gevaert, Kris, Kumar, J. Dinesh, Cash, Nicole, Kandola, Sandhir, Hegyi, Peter, Wang, Timothy C., Dockray, Graham J., Varro, Andrea

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 416 KB

english, 2013

6

Changes in Milk Proteome and Metabolome Associated with Dry Period Length, Energy Balance, and Lactation Stage in Postparturient Dairy Cows

Lu, Jing, Antunes Fernandes, Elsa, Páez Cano, Ana Elizabeth, Vinitwatanakhun, Jantipa, Boeren, Sjef, van Hooijdonk, Toon, van Knegsel, Ariette, Vervoort, Jacques, Hettinga, Kasper Arthur

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.55 MB

english, 2013

7

Quantitative Proteomic Analysis Identifies CPNE3 as a Novel Metastasis-promoting Gene in NSCLC

Lin, He-chun, Zhang, Fang-lin, Geng, Qin, Yu, Tao, Cui, Yong-qi, Liu, Xiao-hui, Li, Jing, Yan, Ming-xia, Liu, Lei, He, Xiang-huo, Li, Jin-jun, Yao, Ming

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.58 MB

english, 2013

8

Denoising Peptide Tandem Mass Spectra for Spectral Libraries: A Bayesian Approach

Shao, Wenguang, Lam, Henry

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.93 MB

english, 2013

9

Automated Analysis of Hemoglobin Variants Using NanoLC–MS and Customized Databases

Das, Rajdeep, Mitra, Gopa, Mathew, Boby, Ross, Cecil, Bhat, Vijay, Mandal, Amit Kumar

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.18 MB

english, 2013

10

Heterogeneous Nuclear Ribonucleoproteins and Their Interactors Are a Major Class of Deregulated Proteins in Anaplastic Astrocytoma: A Grade III Malignant Glioma

Polisetty, Ravindra Varma, Gautam, Poonam, Gupta, Manoj Kumar, Sharma, Rakesh, Uppin, Megha S., Challa, Sundaram, Ankathi, Praveen, Purohit, Aniruddh K., Renu, Durairaj, Harsha, H. C., Pandey, Akhiles

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.22 MB

english, 2013

11

Characterization of Molecules Binding to the 70K N-Terminal Region of Fibronectin by IFAST Purification Coupled with Mass Spectrometry

Moussavi-Harami, S. Farshid, Annis, Douglas S., Ma, Wenjiang, Berry, Scott M., Coughlin, Emma E., Strotman, Lindsay N., Maurer, Lisa M., Westphall, Michael S., Coon, Joshua J., Mosher, Deane F., Beebe

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 11.34 MB

english, 2013

12

Phosphoproteomic Analysis of Differentiating Leishmania Parasites Reveals a Unique Stage-Specific Phosphorylation Motif

Tsigankov, Polina, Gherardini, Pier Federico, Helmer-Citterich, Manuela, Späth, Gerald F., Zilberstein, Dan

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 2.65 MB

english, 2013

13

Hexavalent Chromium-induced Alteration of Proteomic Landscape in Human Skin Fibroblast Cells

Guo, Lei, Xiao, Yongsheng, Wang, Yinsheng

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.33 MB

english, 2013

14

Rapid Assessment of RNAi-mediated Protein Depletion by Selected Reaction Monitoring Mass Spectrometry

Glukhova, Veronika A., Tomazela, Daniela M., Findlay, Geoffrey D., Monnat, Raymond J., MacCoss, Michael J.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.88 MB

english, 2013

15

Statistically Enhanced Spectral Counting Approach to TCDD Cardiac Toxicity in the Adult Zebrafish Heart

Zhang, Jiang, Lanham, Kevin A, Heideman, Warren, Peterson, Richard E., Li, Lingjun

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.25 MB

english, 2013

16

Moving Pieces in a Venomic Puzzle: Unveiling Post-translationally Modified Toxins from Tityus serrulatus

Verano-Braga, Thiago, Dutra, Alexandre A. A., León, Ileana R., Melo-Braga, Marcella N., Roepstorff, Peter, Pimenta, Adriano M. C., Kjeldsen, Frank

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 4.35 MB

english, 2013

17

Targeted Quantification of Low ng/mL Level Proteins in Human Serum without Immunoaffinity Depletion

Shi, Tujin, Sun, Xuefei, Gao, Yuqian, Fillmore, Thomas L., Schepmoes, Athena A., Zhao, Rui, He, Jintang, Moore, Ronald J., Kagan, Jacob, Rodland, Karin D., Liu, Tao, Liu, Alvin Y., Smith, Richard D.,

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.33 MB

english, 2013

18

Two Traditional Maize Inbred Lines of Contrasting Technological Abilities Are Discriminated by the Seed Flour Proteome

Pinheiro, Carla, Sergeant, Kjell, Machado, Cátia M., Renaut, Jenny, Ricardo, Cândido P.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.36 MB

english, 2013

19

Chronic Ethanol Consumption Alters Mammalian Gastrointestinal Content Metabolites

Xie, Guoxiang, Zhong, Wei, Zheng, Xiaojiao, Li, Qiong, Qiu, Yunping, Li, Houkai, Chen, Huiyuan, Zhou, Zhanxiang, Jia, Wei

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.32 MB

english, 2013

20

Influenza A Infection of Primary Human Airway Epithelial Cells Up-Regulates Proteins Related to Purine Metabolism and Ubiquitin-Related Signaling

Kroeker, Andrea L., Ezzati, Peyman, Coombs, Kevin M., Halayko, Andrew J.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 804 KB

english, 2013

21

Improved N α -Acetylated Peptide Enrichment Following Dimethyl Labeling and SCX

Chen, Sin-Hong, Chen, Chiy-Rong, Chen, Shu-Hui, Li, Ding-Tzai, Hsu, Jue-Liang

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 581 KB

english, 2013

22

Degradation Rate of Mitochondrial Proteins in Arabidopsis thaliana Cells

Nelson, Clark J., Li, Lei, Jacoby, Richard P., Millar, A. Harvey

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.36 MB

english, 2013

23

Combined N-Glycome and N-Glycoproteome Analysis of the Lotus japonicus Seed Globulin Fraction Shows Conservation of Protein Structure and Glycosylation in Legumes

Dam, Svend, Thaysen-Andersen, Morten, Stenkjær, Eva, Lorentzen, Andrea, Roepstorff, Peter, Packer, Nicolle H., Stougaard, Jens

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.65 MB

english, 2013

24

A New Method for the Rapid Diagnosis of Protein N-linked Congenital Disorders of Glycosylation

Heywood, Wendy E., Mills, Philippa, Grunewald, Stephanie, Worthington, Viki, Jaeken, Jaak, Carreno, Gabriela, Lemonde, Hugh, Clayton, Peter T., Mills, Kevin

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 3.22 MB

english, 2013

25

Altered Expression of Sialylated Glycoproteins in Ovarian Cancer Sera Using Lectin-based ELISA Assay and Quantitative Glycoproteomics Analysis

Wu, Jing, Xie, Xiaolei, Nie, Song, Buckanovich, Ronald J., Lubman, David M.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 3.82 MB

english, 2013

26

Multiple Univariate Data Analysis Reveals the Inulin Effects on the High-Fat-Diet Induced Metabolic Alterations in Rat Myocardium and Testicles in the Preobesity State

Duan, Yixuan, An, Yanpeng, Li, Ning, Liu, Bifeng, Wang, Yulan, Tang, Huiru

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.42 MB

english, 2013

27

Identification of Human Protein Interaction Domains using an ORFeome-based Yeast Two-hybrid Fragment Library

Waaijers, Selma, Koorman, Thijs, Kerver, Jana, Boxem, Mike

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 2.46 MB

english, 2013

28

Alterations of Histone H1 Phosphorylation During Bladder Carcinogenesis

Telu, Kelly H., Abbaoui, Besma, Thomas-Ahner, Jennifer M., Zynger, Debra L., Clinton, Steven K., Freitas, Michael A., Mortazavi, Amir

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.49 MB

english, 2013

29

Neuron Enriched Nuclear Proteome Isolated from Human Brain

Dammer, Eric B., Duong, Duc M., Diner, Ian, Gearing, Marla, Feng, Yue, Lah, James J., Levey, Allan I., Seyfried, Nicholas T.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 3.75 MB

english, 2013

30

Functional Classification of Cellular Proteome Profiles Support the Identification of Drug Resistance Signatures in Melanoma Cells

Paulitschke, Verena, Haudek-Prinz, Verena, Griss, Johannes, Berger, Walter, Mohr, Thomas, Pehamberger, Hubert, Kunstfeld, Rainer, Gerner, Christopher

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 3.03 MB

english, 2013

31

Deconvolution of Mixture Spectra and Increased Throughput of Peptide Identification by Utilization of Intensified Complementary Ions Formed in Tandem Mass Spectrometry

Kryuchkov, Fedor, Verano-Braga, Thiago, Hansen, Thomas A., Sprenger, Richard R., Kjeldsen, Frank

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.50 MB

english, 2013

32

Native Protein Complexes in the Cytoplasm of Red Blood Cells

Pallotta, Valeria, D’Alessandro, Angelo, Rinalducci, Sara, Zolla, Lello

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 3.95 MB

english, 2013

33

Proteome-wide Dysregulation by Glucose-6-phosphate Dehydrogenase (G6PD) Reveals a Novel Protective Role for G6PD in Aflatoxin B 1 -Mediated Cytotoxicity

Lin, Hsin-Ru, Wu, Chih-Ching, Wu, Yi-Hsuan, Hsu, Chia-Wei, Cheng, Mei-Ling, Chiu, Daniel Tsun-Yee

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 4.27 MB

english, 2013

34

Adaptation of a Commonly Used, Chemically Defined Medium for Human Embryonic Stem Cells to Stable Isotope Labeling with Amino Acids in Cell Culture

Liberski, Albert R., Al-Noubi, Muna N., Rahman, Zahra H., Halabi, Najeeb M., Dib, Shaima S., Al-Mismar, Rasha, Billing, Anja M., Krishnankutty, Roopesh, Ahmad, Faizzan S., Raynaud, Christophe M., Rafi

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 3.14 MB

english, 2013

35

Identification of Autocrine Growth Factors Secreted by CHO Cells for Applications in Single-Cell Cloning Media

Lim, U Ming, Yap, Miranda Gek Sim, Lim, Yoon Pin, Goh, Lin-Tang, Ng, Say Kong

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.58 MB

english, 2013

36

Metabolic Phenotype Modulation by Caloric Restriction in a Lifelong Dog Study

Richards, Selena E., Wang, Yulan, Claus, Sandrine P., Lawler, Dennis, Kochhar, Sunil, Holmes, Elaine, Nicholson, Jeremy K.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.03 MB

english, 2013

37

Use of Theoretical Peptide Distributions in Phosphoproteome Analysis

Kalita, Mridul, Kasumov, Takhar, Brasier, Allan R., Sadygov, Rovshan G.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 359 KB

english, 2013

38

Comparative Informatics Analysis to Evaluate Site-Specific Protein Oxidation in Multidimensional LC–MS/MS Data

McClintock, Carlee S., Parks, Jerry M., Bern, Marshall, GhattyVenkataKrishna, Pavan K., Hettich, Robert L.

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 408 KB

english, 2013

39

HR-MAS NMR Tissue Metabolomic Signatures Cross-validated by Mass Spectrometry Distinguish Bladder Cancer from Benign Disease

Tripathi, Pratima, Somashekar, Bagganahalli S., Ponnusamy, M., Gursky, Amy, Dailey, Stephen, Kunju, Priya, Lee, Cheryl T., Chinnaiyan, Arul M., Rajendiran, Thekkelnaycke M., Ramamoorthy, Ayyalusamy

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.87 MB

english, 2013

40

Microbial–Mammalian Cometabolites Dominate the Age-associated Urinary Metabolic Phenotype in Taiwanese and American Populations

Swann, Jonathan R., Spagou, Konstantina, Lewis, Matthew, Nicholson, Jeremy K., Glei, Dana A., Seeman, Teresa E., Coe, Christopher L., Goldman, Noreen, Ryff, Carol D., Weinstein, Maxine, Holmes, Elaine

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 2.72 MB

english, 2013

41

Characterization of the Novel Broad-Spectrum Kinase Inhibitor CTx-0294885 As an Affinity Reagent for Mass Spectrometry-Based Kinome Profiling

Zhang, Luxi, Holmes, Ian P., Hochgräfe, Falko, Walker, Scott R., Ali, Naveid A., Humphrey, Emily S., Wu, Jianmin, de Silva, Melanie, Kersten, Wilhelmus J. A., Connor, Theresa, Falk, Hendrik, Allan, Ly

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 1.23 MB

english, 2013

42

MucoRice-cholera Toxin B-subunit, a Rice-based Oral Cholera Vaccine, Down-regulates the Expression of α-Amylase/trypsin Inhibitor-like Protein Family as Major Rice Allergens

Kurokawa, Shiho, Nakamura, Rika, Mejima, Mio, Kozuka-Hata, Hiroko, Kuroda, Masaharu, Takeyama, Natsumi, Oyama, Masaaki, Satoh, Shigeru, Kiyono, Hiroshi, Masumura, Takehiro, Teshima, Reiko, Yuki, Yoshi

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 982 KB

english, 2013