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Proteomics. Clinical Applications

Lin Yang, Zhou Yang, Lei Cheng, Juan Cheng, Li Cheng, Yangyang Sun, Wenting Li, Kai Song, Weichun Huang, Yong Yin, Shengce Tao, Qinghua Zhang
PURPOSE: Etiological diagnosis of pediatric patients with community-acquired pneumonia is difficult. For therapy, one of the major problems is the difficulty in separating bacterial pneumonia which would benefit from antibiotics from non-bacterial pneumonia. Therefore, we sought to identify potential biomarkers for distinguishing non-bacterial pneumonia from bacterial pneumonia. EXPERIMENTAL DESIGN: Lectin microarray containing 91 lectins was used to screen serums from pediatric patients with pneumonia...
May 22, 2018: Proteomics. Clinical Applications
Yang Liu, Lu Feng, Hua Wang, Yu-Jia Wang, Hsiao-Chang Chan, Xiao-Hua Jiang, Wei-Ming Fu, Gang Li, Jin-Fang Zhang
PURPOSE: Our previous study reported an elevated inflammation during tendon injury in mice with cystic fibrosis (CF), indicating the inadequate management of inflammation due to dysfunction of the cystic fibrosis transmembrane conductance regulator (CFTR). The objective of this study is to identify the targets of CFTR that contribute to the abnormal inflammation during tendon injury. EXPERIMENTAL DESIGN: A two-dimensional gel electrophoresis and mass spectrometry-based comparative proteomics was performed to find the molecular targets of CFTR...
May 21, 2018: Proteomics. Clinical Applications
Mindi Zhao, Yehong Yang, Zhengguang Guo, Chen Shao, Haidan Sun, Yang Zhang, Ying Sun, Yaoran Liu, Yijun Song, Liwei Zhang, Qian Li, Juntao Liu, Mingxi Li, Youhe Gao, Wei Sun
PURPOSE: Body fluid is considered a rich source of disease biomarkers. Proteins in many body fluids have potential clinical applications for disease diagnostic and prognostic predictions. EXPERIMENTAL DESIGN: To determine differences in the protein components and functional features of body fluids, a proteomic comparison of five body fluids (plasma, urine, cerebrospinal fluid, saliva and amniotic fluid) was conducted by high-resolution mass spectrometry. RESULTS: A total of 4717 nonredundant proteins were identified, and the concentrations of 3433 proteins were estimated by an intensity-based algorithm quantitation method...
May 21, 2018: Proteomics. Clinical Applications
Juan Yang, Yanni Chen, Xiaofan Xiong, Xiaobo Zhou, Lin Han, Ei Ni, Wenjing Wang, Xiaofei Wang, Lingyu Zhao, Dongdong Shao, Chen Huang
PURPOSE: Autism spectrum disorder (ASD) is a neurological and developmental disorder that begins early in childhood and lasts throughout one's life. Early diagnosis is essential for ASD since early treatment can enable children with ASD to make significant gains in language and social skills, but remains challenging since there are currently no specific biomarkers of ASD. The study aimed to identify serum biomarkers for ASD. EXPERIMENTAL DESIGN: Serum of Han Chinese children with ASD (n = 68) and age-matched healthy controls (n = 80) was analyzed using magnetic bead-based separation combined with mass spectrum...
May 13, 2018: Proteomics. Clinical Applications
Oliver Klein, Thorsten Hanke, Grit Nerbrich, Junfeng Yan, Benedikt Schubert, Patrick Giavalisco, Frank Noack, Herbert Thiele, Salah A Mohamed
PURPOSE: Atrial fibrillation (AF) is a cardiac arrhythmia characterized by a rapid and irregular heart rhythm. AF types, paroxysmal (PX), persistent (PE) and long-lasting persistent (LSP), requires differences in clinical management. Unfortunately, a significant proportion of AF patients are clinical misclassified. Therefore, our study aim that MALDI-Imaging (IMS) is valuable as a diagnostic aid in AF subtypes assessment. EXPERIMENTAL DESIGN: Patients were clinically classified according guidelines of the European Society of Cardiology...
May 13, 2018: Proteomics. Clinical Applications
Ravikanth Danda, Kalaivani Ganapathy, Gajanan Sathe, Anil K Madugundu, Uma Maheswari Krishnan, Vikas Khetan, Pukhraj Rishi, Harsha Gowda, Akhilesh Pandey, Krishnakumar Subramanian, Ts Keshava Prasad, Sailaja V Elchuri
PURPOSE: Retinoblastoma (RB) is a pediatric ocular cancer which is caused due to the aberrations in the RB1 gene. The changes in the membrane proteomics would help in understanding the development of the retinoblastoma and could identify candidates for biomarkers and therapy. EXPERIMENTAL DESIGN: We performed quantitative proteomics on the enriched membrane fractions from pooled normal retina (n = 5) and pooled retinoblastoma tissues (n = 5). The proteins were tryptic digested and tagged with iTRAQ labels...
May 9, 2018: Proteomics. Clinical Applications
Hong Qiu, Songshan Shi, Shunchun Wang, Hong Peng, Shi-Jian Ding, Lianchun Wang
PURPOSE: Vascular smooth muscle cells (VSMC) and endothelial cells (EC) communicate mutually to coordinate vascular development and homeostasis. Exosomes are emerging as one type of the mediators involved in this communication. Characterizing proteins in the exosomes is the critical first step in understanding how the VSMC-EC crosstalk is mediated by exosomes. EXPERIMENTAL DESIGN: We profiled the proteins in the human VSMC-derived exosomes using nanoLC-MS/MS based proteomics...
April 24, 2018: Proteomics. Clinical Applications
Collins Cheruiyot, Zemplen Pataki, Bharat Ramratnam, Ming Li
Exosomes are 30-100 nm extracellular vesicles secreted from late endosomes by various types of cells. Numerous studies have suggested that exosomes play significant roles in HIV-1 biogenesis. Proteomics coupled with exosome fractionation has been successfully used to identify various exosomal proteins and helped us to uncover the interactions between exosomes and HIV-1. To inform the current progress in the intersection of exosome, proteomics and HIV-1, this review is focused on: i) analyzing different exosome isolation, purification methods and their implications in HIV-1 studies; ii) evaluating the roles of various proteomic techniques in defining exosomal contents; iii) discussing the research and clinical applications of proteomics and exosome in HIV-1 biology...
April 23, 2018: Proteomics. Clinical Applications
Zhongwei Xu, Xiaohan Jin, Wei Cai, Maobin Zhou, Ping Shao, Zhen Yang, Rong Fu, Jin Cao, Yan Liu, Fang Yu, Rong Fan, Yan Zhang, Shuang Zou, Xin Zhou, Ning Yang, Xu Chen, Yuming Li
PURPOSE: Early-onset preeclampsia (EOS-PE) refers to preeclampsia that occurred before 34 gestation weeks. This study was conducted to explore the relationship between mitochondrial dysfunction and the pathogenesis of EOS-PE using proteomic strategy. EXPERIMENTAL DESIGN: To identify altering expressed mitochondrial proteins between severe EOS-PE and healthy pregnancies, enrichment of mitochondria coupled with iTRAQ-based quantitative proteomic method was performed...
April 20, 2018: Proteomics. Clinical Applications
Pedro Magalhães, Claudia Pontillo, Martin Pejchinovski, Justyna Siwy, Magdalena Krochmal, Manousos Makridakis, Emma Carrick, Julie Klein, William Mullen, Joachim Jankowski, Antonia Vlahou, Harald Mischak, Joost P Schanstra, Petra Zürbig, Lars Pape
PURPOSE: Urine is considered to be produced predominantly as a result of plasma filtration in the kidney. However, the origin of the native peptides present in urine has never been investigated in detail. Therefore, we aimed to obtain a first insight into the origin of urinary peptides based on a side-by-side comprehensive analysis of the plasma and urine peptidome. METHODS: Twenty-two matched urine and plasma samples were analyzed for their peptidome using capillary electrophoresis coupled to mass spectrometry (CE-MS; for relative quantification) and CE- or LC coupled to tandem mass spectrometry (CE- or LC- MS/MS; for peptide identification)...
April 3, 2018: Proteomics. Clinical Applications
Mariaimmacolata Preianò, Giuseppina Maggisano, Maria Stella Murfuni, Chiara Villella, Corrado Pelaia, Tiziana Montalcini, Nicola Lombardo, Girolamo Pelaia, Rocco Savino, Rosa Terracciano
PURPOSE: Gingival crevicular fluid (GCF) is an important diagnostic source of biomarkers for both periodontitis and gingivitis. However, GCF peptide signature may change depending on factors such as handling and storage. Here we propose a standardized methodology for GCF analysis by MALDI-TOF/TOF-MS in order to distinguish a characteristic peptide signature of gingivitis. EXPERIMENTAL DESIGN: The best storage/handling conditions which may ensure the stability of the endogenous peptidome in GCF is determined and then MALDI-TOF MS comparative analysis is performed...
March 30, 2018: Proteomics. Clinical Applications
Corinne Haller, Prasad Chaskar, Julie Piccand, Ornella Cominetti, Charlotte Macron, Loïc Dayon, Marine R-C Kraus
PURPOSE: Great progresses have been made for generating in vitro pluripotent stem cell pancreatic β-like cells. However, the maturation stage of the cells still requires in vivo maturation to recreate the environmental niche. A deeper understanding of the factors promoting maturation of the cells is of great interest for clinical applications. EXPERIMENTAL DESIGN: We performed label-free mass spectrometry-based proteomic analysis of samples from a longitudinal study of differentiation of human-induced pluripotent stem cells towards glucose-responsive insulin producing cells...
March 26, 2018: Proteomics. Clinical Applications
Marjorie Pizarro-Guajardo, María Cristina Ravanal, Maria Daniela Paez, Eduardo Callegari, Daniel Paredes-Sabja
PURPOSE: Clostridium difficile infections are the leading cause of diarrhea associated to the use of antibiotics. During infection, C. difficile initiates a sporulation cycle leading to the persistence of C. difficile spores in the host and disease dissemination. The development of vaccine and passive immunization therapies against C. difficile have focused on toxins A and B. In the present study, we used an immunoproteome-based approach to identify immunogenic proteins located on the outer layers of C...
March 23, 2018: Proteomics. Clinical Applications
Navin Rauniyar, Xiaoqing Yu, Jennifer Cantley, Edward Voss, Justin Belcher, Chris Colangelo, Kathryn Stone, Neera Dahl, Chirag Parikh, TuKiet T Lam, Lloyd G Cantley
PURPOSE: Autosomal Dominant Polycystic Kidney Disease (ADPKD) is a life-long disease in which the genes responsible are known, but the pathogenesis of cyst formation and cyst growth are not understood. Cyst growth ultimately leads to end stage renal failure in most patients. Analysis of the urinary proteome offers the potential to identify proteins that indicate the presence of cysts (and thus provides diagnosis) as well as the rates of cyst growth (providing prognostic information). EXPERIMENTAL DESIGN: We performed scheduled Parallel Reaction Monitoring (sPRM) assay on urine samples from 14 patients and 18 normal controls...
March 23, 2018: Proteomics. Clinical Applications
Natalia Tiberti, Jean-Charles Sanchez
Sleeping sickness is a neglected tropical disease caused by Trypanosoma brucei parasites, affecting the poorest communities in sub-Saharan Africa. The great efforts done by the scientific community, local governments, and non-governmental organizations (NGOs) via active patients' screening, vector control, and introduction of improved treatment regimens have significantly contributed to the reduction of human African trypanosomiasis (HAT) incidence during the last 15 years. Consequently, the WHO has announced the objective of HAT elimination as a public health problem by 2020...
March 8, 2018: Proteomics. Clinical Applications
Lian Gui, Qianqian Zhang, Yan Cai, Xiaohong Deng, Yingke Zhang, Cheukfai Li, Qi Guo, Xiaoshun He, Junqi Huang
PURPOSE: Previous studies have demonstrated that let-7e is associated with inflammatory responses. To date, the roles and mechanisms of let-7e have not been completely revealed.Therefore, we aim to identify proteins associated with let-7e overexpression and explore their functions in the immune responses, including in cytokine production. EXPERIMENTAL DESIGN: High-throughput isobaric tag for relative and absolute quantitation (iTRAQ) technology is used to provide the first genome-wide study of THP-1 cells transfected with let-7e mimic followed by lipopolysaccharide (LPS) stimulation...
March 5, 2018: Proteomics. Clinical Applications
Bhagyashree Nandakishor Swarge, Winfried Roseboom, Linli Zheng, Wishwas R Abhyankar, Stanley Brul, Chris G de Koster, Leo J de Koning
PURPOSE: Bacterial endospores, the transmissible forms of pathogenic bacilli and clostridia, are heterogeneous multilayered structures composed of proteins. These proteins protect the spores against a variety of stresses, thus helping spore survival, and assist in germination, by interacting with the environment to form vegetative cells. Owing to the complexity, insolubility, and dynamic nature of spore proteins, it has been difficult to obtain their comprehensive protein profiles. EXPERIMENTAL DESIGN: The intact spores of Bacillus subtilis, Bacillus cereus, and Peptoclostridium difficile and their vegetative counterparts were disrupted by bead beating in 6 m urea under reductive conditions...
February 27, 2018: Proteomics. Clinical Applications
Andrea Padoan
The successful use of proteomic technology for the discovery of clinically relevant, new candidate biomarkers, especially in the low molecular weight range (peptidome), calls for a careful consideration of standardized operating procedures (SOP) for pre-analytical variables, including samples handling and storage. The current lack of standardization, widely considered a relevant source of random and systematic errors, underlies the uncertainty of analytical results and poor comparability, especially in multi-centric or inter-laboratory studies...
May 2018: Proteomics. Clinical Applications
Juhura G Almazi, Peter Pockney, Craig Gedye, Nathan D Smith, Hubert Hondermarck, Nicole M Verrills, Matthew D Dun
BACKGROUND: Optimized blood collection tubes (BCT) have been developed to expand the utility of plasma cell-free DNA (cfDNA) and are in clinical use. The appropriateness of plasma collected and stored in these tubes for proteomic analysis is unknown. METHODS: Paired blood samples were collected in BCT and traditional K3EDTA (EDTA) tubes from healthy controls and from colorectal cancer (CRC) patients before and after surgery, and stored for between 45 min and 48 h at room temperature...
May 2018: Proteomics. Clinical Applications
Nikita Gahoi, Darpan Malhotra, Aliasgar Moiyadi, Santosh G Varma, Mayuri N Gandhi, Sanjeeva Srivastava
No abstract text is available yet for this article.
March 2018: Proteomics. Clinical Applications
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