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  1. Content type: Methodology

    SDS-PAGE followed by in-gel digestion (IGD) is a popular workflow in mass spectrometry-based proteomics. In GeLC-MS/MS, a protein lysate of a biological sample is separated by SDS-PAGE and each gel lane is sli...

    Authors: Sander R Piersma, Marc O Warmoes, Meike de Wit, Inge de Reus, Jaco C Knol and Connie R Jiménez

    Citation: Proteome Science 2013 11:17

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  2. Content type: Research

    Vigna mungo, a tropical leguminous plant, highly susceptible to yellow mosaic disease caused by Mungbean Yellow Mosaic India Virus (MYMIV) resulting in high yield penalty. The molecular events occurring during c...

    Authors: Subrata Kundu, Dipjyoti Chakraborty, Anirban Kundu and Amita Pal

    Citation: Proteome Science 2013 11:15

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  3. Content type: Research

    Refractory anemia and refractory anemia with ringed sideroblasts are two myelodysplastic syndrome (MDS) subgroups linked with anemia. MDS is a group of heterogeneous oncohematological bone marrow disorders cha...

    Authors: Pavel Májek, Zuzana Riedelová-Reicheltová, Jiří Suttnar, Klára Pečánková, Jaroslav Čermák and Jan E Dyr

    Citation: Proteome Science 2013 11:14

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  4. Content type: Research

    The comprehensive analysis of human kidney glomerulus we previously performed using highly purified glomeruli, provided a dataset of 6,686 unique proteins representing 2,966 distinct genes. This dataset, howev...

    Authors: Zenyui Cui, Yutaka Yoshida, Bo Xu, Ying Zhang, Masaaki Nameta, Sameh Magdeldin, Tomoo Makiguchi, Toshikazu Ikoma, Hidehiko Fujinaka, Eishin Yaoita and Tadashi Yamamoto

    Citation: Proteome Science 2013 11:13

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  5. Content type: Research

    Derived from Hobbit as the female parent and Zao5241 as the male parent, the elite soybean cultivar Jidou17 is significantly higher yielding and shows enhanced qualities and stronger resistance to non-biologic...

    Authors: Jun Qin, Feng Gu, Duan Liu, Changcheng Yin, Shuangjin Zhao, Hao Chen, Jianan Zhang, Chunyan Yang, Xu Zhan and Mengchen Zhang

    Citation: Proteome Science 2013 11:12

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  6. Content type: Research

    Glycogen is a branched polysaccharide of glucose residues, consisting of α-1-4 glycosidic linkages with α-1-6 branches that together form multi-layered particles ranging in size from 30 nm to 300 nm. Glycogen ...

    Authors: David Stapleton, Chad Nelson, Krishna Parsawar, Marcelo Flores-Opazo, Donald McClain and Glendon Parker

    Citation: Proteome Science 2013 11:11

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  7. Content type: Research

    This study examined the effect of storage temperature on the protein profile of human plasma. Plasma samples were stored for 13 days at -80°C, -20°C, +4°C and room temperature (20-25°C) prior to proteomic anal...

    Authors: Sara Pasella, Angela Baralla, Elisabetta Canu, Sara Pinna, James Vaupel, Marta Deiana, Claudio Franceschi, Giovannella Baggio, Angelo Zinellu, Salvatore Sotgia, Giuseppe Castaldo, Ciriaco Carru and Luca Deiana

    Citation: Proteome Science 2013 11:10

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  8. Content type: Research

    Meat quality is a complex trait influenced by a range of factors with post mortem biochemical processes highly influential in defining ultimate quality. High resolution two-dimensional DIfference Gel Electrophore...

    Authors: Alessio Di Luca, Giuliano Elia, Anne Maria Mullen and Ruth M Hamill

    Citation: Proteome Science 2013 11:9

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  9. Content type: Research

    Flour quality is largely determined by the gluten proteins, a complex mixture of proteins consisting of high molecular weight-glutenin subunits (HMW-GS), low molecular weight-glutenin subunits (LMW-GS), and α-...

    Authors: William J Hurkman, Charlene K Tanaka, William H Vensel, Roger Thilmony and Susan B Altenbach

    Citation: Proteome Science 2013 11:8

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  10. Content type: Research

    A number of Tuber species are ecologically important. The fruiting bodies of some of these also have value as a cooking ingredient due to the fact that they possess exceptional flavor and aromatic properties. In ...

    Authors: Federico Vita, Valentina Lucarotti, Emanuele Alpi, Raffaella Balestrini, Antonietta Mello, Angela Bachi, Massimo Alessio and Amedeo Alpi

    Citation: Proteome Science 2013 11:7

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  11. Content type: Research

    Arthrospira (Spirulina) platensis as a representative species of cyanobacteria has been recognized and used worldwide as a source of protein in the food, which possesses some unusual and valuable physiological c...

    Authors: Huili Wang, Yanmei Yang, Wei Chen, Li Ding, Peizhen Li, Xiaokai Zhao, Xuedong Wang, Aiying Li and Qiyu Bao

    Citation: Proteome Science 2013 11:6

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  12. Content type: Methodology

    Mass spectrometry, an analytical technique that measures the mass-to-charge ratio of ionized atoms or molecules, dates back more than 100 years, and has both qualitative and quantitative uses for determining c...

    Authors: JA Koziol, NM Griffin, F Long, Y Li, M Latterich and JE Schnitzer

    Citation: Proteome Science 2013 11:5

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  13. Content type: Research

    Cancer cell migration is fundamentally required for breast tumour invasion and metastasis. The insulin-like growth factor 1 tyrosine kinase receptor (IGF-1R) and the chemokine G-protein coupled receptor, CXCR4...

    Authors: Meizhi Niu, Manuela Klingler-Hoffmann, Julie A Brazzatti, Briony Forbes, Chareeporn Akekawatchai, Peter Hoffmann and Shaun R McColl

    Citation: Proteome Science 2013 11:4

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  14. Content type: Research

    Deinococcus deserti VCD115 has been isolated from Sahara surface sand. This radiotolerant bacterium represents an experimental model of choice to understand adaptation to harsh conditions encountered in hot arid...

    Authors: Alain Dedieu, Elodie Sahinovic, Philippe Guérin, Laurence Blanchard, Sylvain Fochesato, Bruno Meunier, Arjan de Groot and Jean Armengaud

    Citation: Proteome Science 2013 11:3

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  15. Content type: Research

    Beech bark disease is an insect-fungus complex that damages and often kills American beech trees and has major ecological and economic impacts on forests of the northeastern United States and southeastern Cana...

    Authors: Mary E Mason, Jennifer L Koch, Marek Krasowski and Judy Loo

    Citation: Proteome Science 2013 11:2

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  16. Content type: Research

    Nitric oxide (NO) mediates its function through the direct modification of various cellular targets. S-nitrosylation is a post-translational modification of cysteine residues by NO that regulates protein funct...

    Authors: Akira T Komatsubara, Tomoya Asano, Hiroki Tsumoto, Kazuharu Shimizu, Takumi Nishiuchi, Masanori Yoshizumi and Kentaro Ozawa

    Citation: Proteome Science 2012 10:74

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  17. Content type: Research

    Various factors shape the response of plants to herbivorous insects, including wounding patterns, specific chemical effectors and feeding habits of the attacking herbivore. Here we performed a comparative prot...

    Authors: Marc-Olivier Duceppe, Conrad Cloutier and Dominique Michaud

    Citation: Proteome Science 2012 10:73

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  18. Content type: Research

    Perilla (Perilla frutescens) oil is very rich in α-linolenic acid, an omega-3 fatty acid. As it is widely reported that omega-3 fatty acid supplementation improves cognitive function in children and adults, feedi...

    Authors: Jinwoo Lee, Sunmin Park, Ju-Young Lee, Yeong Keun Yeo, Jong Sang Kim and Jinkyu Lim

    Citation: Proteome Science 2012 10:72

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  19. Content type: Research

    Microarray technology may offer a new opportunity to gain insight into disease-specific global protein expression profiles. The present study was performed to apply a serum antibody microarray to screen for di...

    Authors: Philipp Mahlknecht, Sylvia Stemberger, Fabienne Sprenger, Johannes Rainer, Eva Hametner, Rudolf Kirchmair, Christoph Grabmer, Christoph Scherfler, Gregor K Wenning, Klaus Seppi, Werner Poewe and Markus Reindl

    Citation: Proteome Science 2012 10:71

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  20. Content type: Research

    CD133-positive liver cancer stem cells, which are characterized by their resistance to conventional chemotherapy and their tumor initiation ability at limited dilutions, have been recognized as a critical targ...

    Authors: Sheng-Ta Tsai, Chih-Chiang Tsou, Wan-Yu Mao, Wei-Chao Chang, Hsin-Ying Han, Wen-Lian Hsu, Chung-Leung Li, Chia-Ning Shen and Chung-Hsuan Chen

    Citation: Proteome Science 2012 10:69

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  21. Content type: Research

    The urinary proteome has been widely used for biomarker discovery. A urinary proteome database from normal humans can provide a background for discovery proteomics and candidate proteins/peptides for targeted ...

    Authors: Xuejiao Liu, Chen Shao, Lilong Wei, Jindan Duan, Shuzhen Wu, Xuewang Li, Mingxi Li and Wei Sun

    Citation: Proteome Science 2012 10:70

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  22. Content type: Research

    Coxiella burnetii is Gram-negative bacterium responsible for the zoonosis Q-fever. While it has an obligate intracellular growth habit, it is able to persist for extended periods outside of a host cell and can r...

    Authors: Gabriela Flores-Ramirez, Stefan Janecek, Ján A Miernyk and Ludovit Skultety

    Citation: Proteome Science 2012 10:67

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  23. Content type: Research

    The process of protein-DNA binding has an essential role in the biological processing of genetic information. We use relational machine learning to predict DNA-binding propensity of proteins from their structu...

    Authors: Andrea Szabóová, Ondřej Kuželka, Filip Železný and Jakub Tolar

    Citation: Proteome Science 2012 10:66

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  24. Content type: Research

    The thymus is an immune organ essential for life and plays a crucial role in the development of T cells. It undergoes a fetal to adult developmental maturation process occurring in mouse during the postnatal m...

    Authors: Xinze Cai, Wenyue Huang, Ying Qiao, Yang Chen, Shuyan Du, Dong Chen, Shuang Yu, Ruichao Che and Yi Jiang

    Citation: Proteome Science 2012 10:65

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  25. Content type: Research

    Serum proteins carry out several functions in the circulation, including transfer, immunological functions, messenger functions, coagulation, and regulation of homeostasis. To investigate changes in serum prot...

    Authors: Lilong Wei, Lulu Jia, Lisi Zhu, Sucan Ma, Dan Zhang, Chen Shao, Wei Sun and Youhe Gao

    Citation: Proteome Science 2012 10:64

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  26. Content type: Research

    Patients with periodontitis seek periodontal-orthodontic treatment to address certain functional and aesthetic problems. However, little is known of the effect of periodontitis on orthodontic treatment. Thus, ...

    Authors: Jieni Zhang, Shaonan Zhou, Ruoxuan Li, Tian Cao, Hui Zheng, Xuedong Wang, Yanheng Zhou, Ning Du, Feng Chen and Jiuxiang Lin

    Citation: Proteome Science 2012 10:63

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  27. Content type: Research

    Genome-wide statistics established that long intrinsically disordered regions (over 30 residues) are predicted in a large part of proteins in all eukaryotes, with a higher ratio in trans-membrane proteins. At ...

    Authors: Claude Nespoulous, Valérie Rofidal, Nicolas Sommerer, Sonia Hem and Michel Rossignol

    Citation: Proteome Science 2012 10:62

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  28. Content type: Research

    Dengue fever is the most important arthropod born viral disease of public health significance. Although most patients suffer only from flu-like symptoms, a small group of patient experiences more severe forms ...

    Authors: Romain Fragnoud, Javier Yugueros-Marcos, Alexandre Pachot and Frederic Bedin

    Citation: Proteome Science 2012 10:60

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  29. Content type: Research

    Compartmentalization is a unique feature of eukaryotes that helps in maintaining cellular homeostasis not only in intra- and inter-organellar context, but also between the cells and the external environment. P...

    Authors: Dinesh Kumar Jaiswal, Doel Ray, Pratigya Subba, Poonam Mishra, Saurabh Gayali, Asis Datta, Subhra Chakraborty and Niranjan Chakraborty

    Citation: Proteome Science 2012 10:59

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  30. Content type: Research

    Sesamia nonagrioides is a noctuid that feeds on maize, sugar cane and sorghum in North Africa and Southern Europe. Larvae reared under long day conditions pupate after 5 or 6 larval instars, whereas larvae reare...

    Authors: Meritxell Pérez-Hedo, Isabel Sánchez-López and Matilde Eizaguirre

    Citation: Proteome Science 2012 10:58

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  31. Content type: Research

    MYC2, a basic helix-loop-helix (bHLH) domain-containing transcription factor, participates in the jasmonate (JA) signaling pathway and is involved in the modulation of diverse JA functions. However, a comprehe...

    Authors: Jing Guo, Qiuying Pang, Lihua Wang, Ping Yu, Nan Li and Xiufeng Yan

    Citation: Proteome Science 2012 10:57

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  32. Content type: Methodology

    Protein extraction from formalin-fixed paraffin-embedded (FFPE) tissues is challenging due to extensive molecular crosslinking that occurs upon formalin fixation. Reverse-phase protein array (RPPA) is a high-t...

    Authors: Huifang Guo, Wenbin Liu, Zhenlin Ju, Pheroze Tamboli, Eric Jonasch, Gordon B Mills, Yiling Lu, Bryan T Hennessy and Dimitra Tsavachidou

    Citation: Proteome Science 2012 10:56

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  33. Content type: Research

    The field of biomarker discovery, development and application has been the subject of intense interest and activity, especially with the recent emergence of new technologies, such as proteomics-based approache...

    Authors: Carolina Fernández-Costa, Valentina Calamia, Patricia Fernández-Puente, José-Luis Capelo-Martínez, Cristina Ruiz-Romero and Francisco J Blanco

    Citation: Proteome Science 2012 10:55

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  34. Content type: Research

    The most frequent and malignant brain cancer is glioblastoma multiforme (GBM). In gliomas, tumor progression and poor prognosis are associated with the tumorigenic ability of the cells. U87MG cells (wild-type ...

    Authors: Anelisa Ramão, Marcela Gimenez, Helen Julie Laure, Clarice Izumi, Rodrigo Cesar dos Santos Vida, Sueli Oba-Shinjo, Suely Kazue Nagahashi Marie and Jose Cesar Rosa

    Citation: Proteome Science 2012 10:53

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  35. Content type: Research

    Protein phosphatase 1 (PP1) is one of the major phosphatases responsible for protein dephosphorylation in eukaryotes. Protein phosphatase 1 regulatory subunit 12B (PPP1R12B), one of the regulatory subunits of ...

    Authors: Kimberly Pham, Paul Langlais, Xiangmin Zhang, Alex Chao, Morgan Zingsheim and Zhengping Yi

    Citation: Proteome Science 2012 10:52

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  36. Content type: Research

    A giant congenital melanocytic nevus (GCMN) is a malformation of the pigment cells. It is a distress to the patients for two reasons: one is disfigurement, and the other is the possibility of malignant changes...

    Authors: Hyoung Kyu Kim, Yong Kyu Kim, In-Sung Song, Sung-Ryul Lee, Seung Hun Jeong, Min Hee Kim, Dae Yun Seo, Nari Kim, Byoung Doo Rhee, Kyoung Soo Ko, Kwan Chul Tark, Chul Gyoo Park, Je-Yoel Cho and Jin Han

    Citation: Proteome Science 2012 10:50

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  37. Content type: Research

    Odontogenic myxoma (OM) is a benign, but locally invasive, neoplasm occurring in the jaws. However, the molecules implicated in its development are unknown. OM as well as Dental Follicle (DF), an odontogenic t...

    Authors: Alejandro García-Muñoz, Mario A Rodríguez, Ronell Bologna-Molina, Febe E Cázares-Raga, Fidel C Hernández-Hernández, J Eduardo Farfán-Morales, Juan J Trujillo, Carlos Licéaga-Escalera and Guillermo Mendoza-Hernández

    Citation: Proteome Science 2012 10:49

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  38. Content type: Research

    Porcine reproductive and respiratory syndrome (PRRS) is one of the most significant swine diseases worldwide. Despite its relevance, serum biomarkers associated with early-onset viral infection, when clinical ...

    Authors: Sem Genini, Thomas Paternoster, Alessia Costa, Sara Botti, Mario Vittorio Luini, Andrea Caprera and Elisabetta Giuffra

    Citation: Proteome Science 2012 10:48

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  39. Content type: Research

    Liver infection with hepatitis B virus (HBV), a DNA virus of the Hepadnaviridae family, leads to severe disease, such as fibrosis, cirrhosis and hepatocellular carcinoma. The early steps of the viral life cycle a...

    Authors: Izabela Sokolowska, Cristina Dorobantu, Alisa G Woods, Alina Macovei, Norica Branza-Nichita and Costel C Darie

    Citation: Proteome Science 2012 10:47

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  40. Content type: Research

    Human mesenchymal stem cells (hMSC) have recently raised the attention because of their therapeutic potential in the novel context of regenerative medicine. However, the safety of these new and promising cellu...

    Authors: Emanuele Capra, Riccardo Beretta, Valentina Parazzi, Mariele Viganò, Lorenza Lazzari, Antonella Baldi and Rosaria Giordano

    Citation: Proteome Science 2012 10:46

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  41. Content type: Research

    Male wild type (WT) C57BL/6 mice are less capable of clearing bacteria and surviving from bacterial pneumonia than females. However, if an oxidative stress (acute ozone exposure) occurs before infection, the a...

    Authors: David S Phelps, Todd M Umstead and Joanna Floros

    Citation: Proteome Science 2012 10:44

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  42. Content type: Research

    Less than 25% of patients with a pelvic mass who are presented to a gynecologist will eventually be diagnosed with epithelial ovarian cancer. Since there is no reliable test to differentiate between different ...

    Authors: Wouter Wegdam, Perry D Moerland, Danielle Meijer, Shreyas M de Jong, Huub C J Hoefsloot, Gemma G Kenter, Marrije R Buist and Johannes MF G Aerts

    Citation: Proteome Science 2012 10:45

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  43. Content type: Research

    The pleiotropic effects of 3-Hydroxy-3-methylglutaryl coenzyme A reductase inhibitors (statins), which are independent from their cholesterol-lowering action, have been widely recognized in various biological ...

    Authors: Bin Huang, Fu An Li, Chien Hsing Wu and Danny Ling Wang

    Citation: Proteome Science 2012 10:43

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  44. Content type: Research

    Hypoxia acts as a plant stress factor, particularly in cucumbers plants under hydroponic culture. Calcium is involved in stress signal transmission and in the growth of plants. To determine the effect of exoge...

    Authors: Lizhong He, Xiaomin Lu, Jing Tian, Yanjuan Yang, Bin Li, Jing Li and Shirong Guo

    Citation: Proteome Science 2012 10:42

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  45. Content type: Proceedings

    In a single proteomic project, tandem mass spectrometers can produce hundreds of millions of tandem mass spectra. However, majority of tandem mass spectra are of poor quality, it wastes time to search them for...

    Authors: Wenjun Lin, Jianxin Wang, Wen-Jun Zhang and Fang-Xiang Wu

    Citation: Proteome Science 2012 10(Suppl 1):S12

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    This article is part of a Supplement: Volume 10 Supplement 1

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