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Proteomics. Clinical Applications

Dandan Linghu, Lili Guo, Yinghua Zhao, Zhiming Liu, Mingwei Zhao, Lvzhen Huang, Xiaoxin Li
PURPOSE: To analysis proteins in the tissue of pterygia, and to investigate their potential roles in pterygia, using the comparative proteomic technique of Isobaric Tags for Relative and Absolute Quantitation (iTRAQ) coupled with offline 2DLC-MS/MS, Western-bolt. METHOD: The tissues of pterygia and healthy conjunctiva were collected from 10 pterygia patients (6 females, 4 males; average age was 52 years old; average course of disease was 6 years) in our hospital from September, 2015 to March, 2016...
January 13, 2017: Proteomics. Clinical Applications
Deborah Chen, Peter Schubert, Dana V Devine
PURPOSE: Post-collection manipulations (PCMs) aim to increase blood product safety. However, PCMs improve safety at a cost to quality, causing elevated hemolysis. As hemolysis is linked to red blood cell (RBC) membrane integrity, a quantitative proteomics approach was employed to assess membrane proteome alterations induced by PCMs. EXPERIMENTAL DESIGN: Three ABO-matched whole blood (WB) units were pooled-and-split into three identical units. One WB unit was treated with riboflavin/ultraviolet illumination prior to red cell concentrate (RCC) production (RCC(WB*) )...
January 13, 2017: Proteomics. Clinical Applications
Xia Wang, Qiang Hao, Yuanli Zhao, Yi Guo, Wei Ge
PURPOSE: Detailed and exact mechanisms underlying brain arteriovenous malformations (bAVM) are still clinically confusing. Understanding the quantitative changes in proteins and signaling pathways would provide useful information for clinicians to understand the formation and development of bAVM, guiding individualized treatment strategies. This study was performed to establish a large human bAVM proteome database using tandem mass tag (TMT)-labeling and to detect changes of protein expression and pathways in human bAVM...
January 13, 2017: Proteomics. Clinical Applications
Fabio Pastorino, Mirco Ponzoni, Giuseppina Simone
Galectin decorates the cell membrane and forms an extracellular molecular association with galactoside units. Here, galactoside probes have been used to study galectin expression in neuroblastoma cells. The hypothesis behind this investigation has been that the molecular mechanisms by which glycans modulate neural metastatic cells involve a protein-carbohydrate association, galectin-galactose. Preliminary screening to validate the hypothesis has been performed with galactose moieties anchored to beads. The molecular association has been studied by FACS...
January 9, 2017: Proteomics. Clinical Applications
Claudia Corbo, Armando Cevenini, Francesco Salvatore
About one million people/year develop colorectal cancer (CRC) and approximately half of them die. The extent of the disease (i.e. local invasion at the time of diagnosis) is a key prognostic factor. The 5-year survival rate is almost 90% in the case of delimited CRC and 10% in the case of metastasized CRC. Hence, one of the great challenges in the battle against CRC is to improve early diagnosis strategies. Large-scale proteomic approaches are widely used in cancer research to search for novel biomarkers. Such biomarkers can help in improving the accuracy of the diagnosis and in the optimization of personalized therapy...
December 26, 2016: Proteomics. Clinical Applications
Esther Nkuipou-Kenfack, Petra Zürbig, Harald Mischak
Clinical proteomics aims at the development and the implementation of novel biomarkers that demonstrate a clear clinical benefit in the management of diseases. However, though the attention in the field is increasing and multiple articles on biomarker research are published, clinical implementation of these biomarkers is scarce. In this manuscript, we aim towards identifying the hurdles on the path towards implementation, and present one successful approach, based on capillary electrophoresis coupled to mass spectrometry...
December 26, 2016: Proteomics. Clinical Applications
AnneMarie C Brescia, Megan M Simonds, Kathleen E Sullivan, Carlos D Rose
OBJECTIVE: The goal was to investigate the specific contribution of fibroblast-like synoviocytes (FLS) to the inflammatory milieu of the synovium in juvenile idiopathic arthritis (JIA) through detection of secreted proteins. METHODS: Expression of 89 cytokines and chemokines was determined on unprocessed synovial fluid from controls and JIA patients using antibody arrays. Supernatants from pure cell cultures of FLS grown from synovial fluids or tissues from JIA and controls were also examined for protein expression...
December 23, 2016: Proteomics. Clinical Applications
Qi Shi, Li-Na Chen, Yan Lv, Bao-Yun Zhang, Kang Xiao, Wei Zhou, Cao Chen, Jing Sun, Xiao-Dong Yang, Xiao-Ping Dong
PURPOSE: To analyze the proteomics patterns in the cortex regions of scrapie strains 139A and ME7 infected mice collected in the middle and terminal stages. EXPERIMENTAL DESIGN: Western Blot and immunohistochemistry methods were used to analyze the pathological changes of mice collected in the middle and terminal stages. The technique of isobaric tags for relative and absolute quantitation (iTRAQ) plus multidimensional liquid chromatography and Mass Spectropetry were used to analyze the proteomics patterns of mice in different stages...
December 19, 2016: Proteomics. Clinical Applications
Chengjian Tu, Wilfrido Mojica, Robert M Straubinger, Jun Li, Shichen Shen, Miao Qu, Lei Nie, Rick Roberts, Bo An, Jun Qu
PURPOSE: The heterogeneous structure in tumor tissues from colorectal cancer (CRC) patients excludes an informative comparison between tumors and adjacent normal tissues. Here, we develop and apply a strategy to compare paired cancerous (CEC) vs. normal (NEC) epithelial cells enriched from patients and discover potential biomarkers and therapeutic targets for CRC. EXPERIMENTAL DESIGN: CEC and NEC cells were respectively isolated from five different tumor and normal locations in the resected colon tissue from each patient (N = 12 patients) using an optimized epithelial cell adhesion molecule (EpCAM)-based enrichment approach...
December 12, 2016: Proteomics. Clinical Applications
Lei Ye, Yuan Hu, Fei-Hong Xu, Cheng-Yun Cai, Da-Wei Song, Zhen-Shan Xu, Wei-Dong Du
PURPOSE: Plasma leptin is secreted from adipose tissues and plays pivotal roles in human physiological and pathological processes. Here, we aimed at conducting a protein biochip-based sandwich-like approach for detection of plasma leptin among healthy individuals, obesity, and diabetes patients. EXPERIMENTAL DESIGN: Totally, 96 plasma samples, including 45 healthy individuals with standard body mass index (BMI), 28 obesity and 23 diabetes patients, were recruited in the study...
December 6, 2016: Proteomics. Clinical Applications
Yvan Caspar, Cécile Garnaud, Mariya Raykova, Sébastien Bailly, Marie Bidart, Danièle Maubon
PURPOSE: Fast species diagnosis has an important health care impact, as rapid and specific antibacterial therapy is of clear benefit for patient's outcome. Here, a new protocol for species identification directly from positive blood cultures is proposed. EXPERIMENTAL DESIGN: Four in-house protocols for bacterial identification by MS directly from clinical positive blood cultures evaluating two lytic agents, SDS and saponin, and two protein extraction schemes, fast (FP) and long (LP) are compared...
December 6, 2016: Proteomics. Clinical Applications
Tao Xu, Bojin Su, Peiyu Huang, Weihong Wei, Yanming Deng, Vasudha Sehgal, Donghui Wang, Jun Jiang, Guoyi Zhang, Anfei Li, Huiling Yang, Francois X Claret
PURPOSE: In patients with Epstein-Barr virus (EBV) associated nasopharyngeal carcinoma (NPC), intertumor heterogeneity causes interpatient heterogeneity in the risk of distant metastasis. We aimed to identify novel biomarkers of metastasis risk using reverse phase protein array (RPPA) profiling of NPC patients at risk for metastasis and considering plasma EBV DNA load. EXPERIMENTAL DESIGN: A total of 98 patients with NPC with and without metastasis after treatment, matched with respect to clinical parameters, are enrolled...
November 24, 2016: Proteomics. Clinical Applications
Hsueh-Hui Yang, Wei-Jun Zhai, Hann-Chorng Kuo
PURPOSE: Ketamine-induced cystitis (KC) among chronic ketamine young abusers has increased dramatically and it has brought attention for Urologists. The underlying pathophysiological mechanism(s) of KC is still unclear. Therefore, the purpose of this study is to elucidate the possible pathophysiological mechanism(s) of KC through proteomic techniques. EXPERIMENTAL DESIGN: Bladder tissues are obtained from seven patients with KC, seven patients with interstitial cystitis/bladder pain syndrome, and five control subjects who underwent video-urodynamic study followed by augmentation enterocystoplasty to increase bladder capacity...
November 10, 2016: Proteomics. Clinical Applications
Johannes Junemann, Gurbet Birgin, Jelena Erdmann, Anke Schröder, Ingo Just, Ralf Gerhard, Andreas Pich
PURPOSE: This study was carried out to investigate the impact of high concentrations of Clostridium difficile toxin A (TcdA) on the proteome of human cells. It should also be examined whether a catalytically deficient mutant (TcdANXN ) has an effect on target cells. EXPERIMENTAL DESIGN: Proteome changes were investigated after treatment of HEp-2 cells with 20 nM TcdA for 8 h using a triplex SILAC labeling method and shotgun proteomics. Proteins from differently labeled and treated cells were combined for analysis using an HPLC coupled to an Orbitrap mass spectrometer...
November 10, 2016: Proteomics. Clinical Applications
Qiutao Meng, Siqi Ge, Wenhua Yan, Ruisheng Li, Jingtao Dou, Haibing Wang, Baoan Wang, Qingwei Ma, Yong Zhou, Manshu Song, Xinwei Yu, Hao Wang, Xinghua Yang, Fen Liu, Mohamed Ali Alzain, Yuxiang Yan, Ling Zhang, Lijuan Wu, Feifei Zhao, Yan He, Xiuhua Guo, Feng Chen, Weizhuo Xu, Monique Garcia, Desmond Menon, Youxin Wang, Yiming Mu, Wei Wang
BACKGROUND: Type 2 diabetes mellitus (T2DM) is a complex, pandemic disease contributing towards the global burden of health issues. To date, there are no simple clinical tests for the early detection of T2DM. METHOD: To identify potential peptide biomarkers for such applications, 406 sera of T2DM patients (n = 206) and healthy controls (n = 200) are analyzed by using MALDI-TOF MS with a cross-sectional case-control design. RESULT: Six peptides (peaks m/z 1452...
November 8, 2016: Proteomics. Clinical Applications
Yan-Ming Xu, Yang-Min Gao, Dan-Dan Wu, Fei-Yuan Yu, Zhong-Sheng Zang, Lei Yang, Yue Yao, Na-Li Cai, Yuan Zhou, Jen-Fu Chiu, Yick-Pang Ching, Andy T Y Lau
PURPOSE: Our previous results showed that cadmium (Cd)-adapted lung epithelial cells (LECs) developed resistance to apoptosis due to non-responsiveness of the c-Jun N-terminal kinase pathway and augmented expression of cytokeratin 8. Since cellular Cd entry is a prerequisite in order for Cd to elicit its cytotoxicity, therefore, we wonder if there are differential metal ion transport ability and also other phenotypic changes that occurred in these Cd-resistant LECs. EXPERIMENTAL DESIGN AND RESULTS: Here, we explored further and found that the zinc (Zn) importer Zip8 was stably abolished in these cells along with a marked decrease of Cd and Zn accumulation...
November 1, 2016: Proteomics. Clinical Applications
Anupama Rajan Bhat, Manoj Kumar Gupta, Priya Krithivasan, Kunal Dhas, Jayalakshmi Nair, Ram Bhupal Reddy, H V Sudheendra, Sandip Chavan, Harsha Vardhan, Sujatha Darsi, Lavanya Balakrishnan, Shanmukh Katragadda, Vikram Kekatpure, Amritha Suresh, Pramila Tata, Binay Panda, Moni A Kuriakose, Ravi Sirdeshmukh
Sample processing protocols that enable compatible recovery of differentially expressed (DE) transcripts and proteins are necessary for integration of the multiomics data applied in the analysis of tumors. In this pilot study, we compared two different isolation methods for extracting RNA and protein from laryngo-pharyngeal tumor tissues and the corresponding adjacent normal sections. In Method 1, RNA and protein were isolated from a single tissue section sequentially and in Method 2, the extraction was carried out using two different sections and two independent and parallel protocols for RNA and protein...
November 1, 2016: Proteomics. Clinical Applications
Yajuan Qiu, Zhiyuan Zhou, Zhaoming Li, Lisha Lu, Ling Li, Xin Li, Xinhua Wang, Mingzhi Zhang
PURPOSE: The aim of the present study was to identify the potential relevant biomarkers to predict the therapeutic response of advanced extranodal natural killer/T cell lymphoma(ENKTL) treated with asparaginase-based treatment. EXPERIMENTAL DESIGN: Proteomic technology is used to identify differentially expressed proteins between chemotherapy-resistant and chemotherapy-sensitive patients. Then enzyme-linked immunosorbent assay is used to validate the predictive value of selective biomarkers...
October 24, 2016: Proteomics. Clinical Applications
Li Zhou, Ji Wen, Zhao Huang, Edouard C Nice, Canhua Huang, Haiyuan Zhang, Qifu Li
Liver cancer is a major global health problem being the sixth most common cancer and the third cause of cancer-related death, with hepatocellular carcinoma (HCC) representing more than 90% of primary liver cancers. Mounting evidence suggests that, compared with their normal counterparts, many types of cancer cell have increased levels of ROS. Therefore, cancer cells need to combat high levels of ROS, especially at early stages of tumor development. Recent studies have revealed that ROS-mediated regulation of redox-sensitive proteins (redox sensors) is involved in the pathogenesis and/or progression of many human diseases, including cancer...
October 20, 2016: Proteomics. Clinical Applications
Saravanan Ramanujam, Bharathselvi Muthuvel, Babu Aravind C, Jyothirmay Biswas, N Sulochana Konerirajapuram
PURPOSE: Eales' disease (ED), an enigmatic inflammatory disease, affects peripheral retinal veins and thereby vision in males. This study was aimed at identifying and deciphering the role of a novel 88-kDa protein reported in the serum and vitreous of patients with ED. EXPERIMENTAL DESIGN: The purified 88-kDa protein was identified by UPLC coupled ESI-QTOF-MS. The identified proteins were quantified in the serum from 20 ED patients and controls (age and sex matched), respectively by ELISA...
January 2017: Proteomics. Clinical Applications
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