12,172 results match your criteria Proteomics[Journal]


Concurrent Proteomic Fingerprinting and Molecular Analysis Of Cyathostomins.

Proteomics 2019 Feb 20:e1800290. Epub 2019 Feb 20.

Institute for Parasitology and Tropical Veterinary Medicine, Department of Veterinary Medicine, Freie Universität Berlin, Germany.

Rapid, cost-effective, efficient and reliable helminth species identification is of considerable importance to understand host-parasite interactions, clinical disease and drug resistance. Cyathostomins (Nematoda: Strongylidae) are considered to be the most important equine parasites, yet research on this group has been hampered by the large number of 50 morphologically differentiated species, their occurrence in mixed infections with up to 15 species and the difficulties associated with conventional identification methods. Here, MALDI-TOF MS, previously successfully applied to identify numerous organisms, was evaluated and compared with conventional and molecular genetic approaches. Read More

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http://dx.doi.org/10.1002/pmic.201800290DOI Listing
February 2019

Quantitative proteomic analysis of low linolenic acid transgenic soybean reveals perturbations of fatty acid metabolic pathways.

Proteomics 2019 Feb 19:e1800379. Epub 2019 Feb 19.

Soybean Genomics and Improvement Laboratory, USDA-ARS, Beltsville, MD, 20705, USA.

To understand the effect of fatty acid desaturase gene (GmFAD3) silencing on perturbation of fatty acid (FA) metabolic pathways, we compared the changes in protein profiling in control and low linolenic acid transgenic soybeans using tandem mass tag (TMT) based mass spectrometry. Protein profiling of the transgenic line unveiled changes in several key enzymes of FA metabolism. This includes enzymes of lower abundance; fabH, fabF and thioestrase associated with FA initiation, elongation and desaturation processes and LOX1_5, ACOX, ACAA1, MFP2 associated with β-oxidation of α-linolenic acids pathways. Read More

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http://dx.doi.org/10.1002/pmic.201800379DOI Listing
February 2019

A Dual-Purpose Bromocoumarin Tag Enables Deep Profiling of the Cellular Cysteinome.

Proteomics 2019 Feb 19:e1800433. Epub 2019 Feb 19.

Discovery Chemistry and Technology, AbbVie Inc., North Chicago, Illinois, 60064-6101, USA.

Chemical proteomics enables comprehensive profiling of small molecules in complex proteomes. A critical component to understanding the interactome of a small molecule is the precise location on a protein where the interaction takes place. Several approaches have been developed which take advantage of bioorthogonal chemistry and subsequent enrichment steps to isolate peptides modified by small molecules. Read More

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http://dx.doi.org/10.1002/pmic.201800433DOI Listing
February 2019

Network analysis of DUSP12 partners in the nucleus under genotoxic stress.

J Proteomics 2019 Feb 16. Epub 2019 Feb 16.

Department of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo, Brazil. Electronic address:

Dual Specificity Phosphatase 12 is a member of the Atypical DUSP Protein Tyrosine Phosphatase family, meaning that it does not contain typical MAP kinase targeting motifs, while being able to dephosphorylate tyrosine and serine/threonine residues. DUSP12 contains, apart from its catalytic domain, a zinc finger domain, making it one of the largest DUSPs, which displays strong nuclear expression in several tissues. In this work we identified nuclear targets of DUSP12 in two different cancer cell lines (A549 and MCF-7), challenging them with genotoxic stimuli to observe the effect on the networks and to link existing information about DUSP12 functions to the data obtained though mass spectrometry. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.008DOI Listing
February 2019
1 Read

Prediction of lymph node metastasis in oral squamous cell carcinoma based on protein profile.

Expert Rev Proteomics 2019 Feb 19. Epub 2019 Feb 19.

a Department of Oral and Maxillofacial-Head & Neck Oncology, Shanghai Ninth People's Hospital & College of Stomatology , Shanghai Jiao Tong University School of Medicine ; Shanghai 200011 , China.

Objective: Lymph node metastasis leads to high mortality rates of oral squamous cell carcinoma (OSCC). However, it is still controversial to define clinically negative neck (cN0) and positive neck (cN1-3).

Methods: We retrieved candidate biomarkers identified by proteomic analysis in OSCC from published literatures. Read More

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http://dx.doi.org/10.1080/14789450.2019.1584039DOI Listing
February 2019

Optimisation of protein extraction for in-depth profiling of the cereal grain proteome.

J Proteomics 2019 Feb 15. Epub 2019 Feb 15.

CSIRO Agriculture and Food, 306 Carmody Rd, St Lucia, QLD 4067, Australia. Electronic address:

Cereal grain proteomics can provide valuable information regarding plant growth, nutritional status, adaptation to environmental stresses, and the role that grain proteins play in health disorders, such as coeliac disease. In this study liquid chromatography-mass spectrometry was used to compare the barley proteome after extraction using seven protocols, with and without defatting and protein precipitation steps that aimed to remove interfering secondary metabolites. Tris-HCl and urea buffers yielded 1405 and 1483 proteins (~79% overlap) from barley (cv Sloop). Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.009DOI Listing
February 2019

Recent advances in the metabolomic study of bladder cancer.

Expert Rev Proteomics 2019 Feb 16. Epub 2019 Feb 16.

a Department of Molecular and Cell Biology , Baylor College of Medicine , Houston , TX , USA.

Introduction: Metabolomics is a chemical process, involving the characterization of metabolites and cellular metabolism. Recent studies indicate that numerous metabolic pathways are altered in bladder cancer (BLCA), providing potential targets for improved detection and possible therapeutic intervention. We review recent advances in metabolomics related to BLCA and identify various metabolites that may serve as potential biomarkers for BLCA. Read More

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http://dx.doi.org/10.1080/14789450.2019.1583105DOI Listing
February 2019

Quantitative label-free mass spectrometry using contralateral and adjacent breast tissues reveal differentially expressed proteins and their predicted impacts on pathways and cellular functions in breast cancer.

J Proteomics 2019 Feb 14. Epub 2019 Feb 14.

Genetics Department, Federal University of Parana, Curitiba, Brazil. Electronic address:

Proteins play an essential role in the biological processes associated with cancer. Their altered expression levels can deregulate critical cellular pathways and interactive networks. In this study, the mass spectrometry-based label-free quantification followed by functional annotation was performed to investigate the most significant deregulated proteins among tissues of primary breast tumor (PT) and axillary metastatic lymph node (LN) and corresponding non-tumor tissues contralateral (NCT) and adjacent (ANT) from patients diagnosed with invasive ductal carcinoma. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.007DOI Listing
February 2019
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Intra-surgical Protein Layer on Titanium Arthroplasty Explants: From the Big Twelve To The Implant Proteome.

Proteomics Clin Appl 2019 Feb 15:e1800168. Epub 2019 Feb 15.

Department of Orthopedics and Trauma Surgery, University of Duisburg-Essen, 45147 Essen, Germany.

Purpose: Aseptic loosening in total joint replacement due to insufficient osteointegration is an unsolved problem in orthopaedics. The purpose of our study was to obtain a picture of the initial protein adsorption layer on femoral endoprosthetic surfaces as the key to the initiation of osseointegration.

Experimental Design: This paper describes the first study of femoral stem explants from patients for proteome analysis of the primary protein layer. Read More

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http://dx.doi.org/10.1002/prca.201800168DOI Listing
February 2019

Standard abbreviations.

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Proteomics 2019 Feb;19(4):e1970024

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http://dx.doi.org/10.1002/pmic.201970024DOI Listing
February 2019

Proteomics for clinical assessment of kidney disease.

Authors:
Alberto Ortiz

Proteomics Clin Appl 2019 Feb 15:e1900004. Epub 2019 Feb 15.

IIS-Fundacion Jimenez Diaz, School of Medicine, Universidad Autonoma de Madrid, Fundacion Renal Iñigo Alvarez de Toledo-IRSIN and REDINREN, Madrid, Spain.

Kidney disease is one of the fastest growing causes of death worldwide, disclosing an unmet clinical need for early diagnosis and optimized risk stratification that allows high risk patient selection for clinical trials and for more intensive nephroprotective interventions in the clinic. The current issue of PROTEOMICS - Clinical Applications contains four manuscripts that explore different aspects of clinical proteomics implementation in the context of acute kidney injury, chronic kidney disease and, more specifically, diabetic kidney disease, and kidney transplantation from a diagnostic and risk stratification point of view. Overall, the evidence discussed suggests that chronic kidney disease is an example where clinical proteomics has become a valuable tool ready for clinical implementation, expected to have a major impact in patient management. Read More

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http://dx.doi.org/10.1002/prca.201900004DOI Listing
February 2019
1 Read

Completing the Immunological Fingerprint by Refractory Proteins: Autoantibody Screening via an Improved Immunoblotting Technique.

Proteomics Clin Appl 2019 Feb 15:e1800157. Epub 2019 Feb 15.

Synaptopathies and Autoantibodies, Faculty of Medicine Jacques Lisfranc, University Jean Monnet, University of Lyon, Saint-Étienne, France.

Purpose: Identifying autoantigens of serological autoantibodies requires expensive methods, such as protein microarrays or immunoprecipitation plus mass spectrometry. Thus, sera are commonly pre-screened for interesting immunopatterns via immunocytochemistry/immunohistochemistry. However, distinguishing immunopatterns can be difficult and intracellular antigens are less accessible. Read More

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http://dx.doi.org/10.1002/prca.201800157DOI Listing
February 2019

Implementing Reverse Phase Protein Array profiling as a sensitive method for the early pre-clinical detection of off-target toxicities associated with Sunitinib Malate.

Proteomics Clin Appl 2019 Feb 15:e1800159. Epub 2019 Feb 15.

RCSI Centre for Systems Medicine, Department of Physiology & Medical Physics, Royal College of Surgeons in Ireland, Dublin 2, Ireland.

The tyrosine kinase inhibitor (TKI) sunitinib is a multi-targeted agent approved across multiple cancer indications. Nevertheless, since approval, data has emerged to describe a worrisome side effect profile including hypertension, hand-foot syndrome, fatigue, diarrhoea, mucositis, proteinuria and (rarely) congestive heart failure. It has been hypothesised that the observed multi-parameter toxicity profile is related to 'on-target' kinase inhibition in 'off-target' tissues. Read More

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http://dx.doi.org/10.1002/prca.201800159DOI Listing
February 2019
1 Read

Progress in farm animal proteomics: The contribution of combinatorial peptide ligand libraries.

J Proteomics 2019 Feb 11;197:1-13. Epub 2019 Feb 11.

Politecnico di Milano, Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Via Mancinelli 7, Milano 20131, Italy.

The present review covers proteomics discoveries in farm animals using combinatorial peptide ligand libraries (CPLLs). These libraries enhance the identification of low-abundance proteins by compressing the dynamic range of the protein concentration. This technology can be applied in multiple biological fluids, such as plasma or serum, follicular and cerebrospinal fluids, urine, saliva, tears seminal fluid, milk whey and even lymph. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.005DOI Listing
February 2019

Intact protein mass spectrometry reveals intraspecies variations in venom composition of a local population of Vipera kaznakovi in Northeastern Turkey.

J Proteomics 2019 Feb 11. Epub 2019 Feb 11.

Technische Universität Berlin, Institut für Chemie, Strasse des 17. Juni 124, 10623 Berlin, Germany. Electronic address:

We report on the variable venom composition of a population of the Caucasus viper (Vipera kaznakovi) in Northeastern Turkey. We applied a combination of venom gland transcriptomics, and de-complexing bottom-up and top-down venomics. In contrast to sole bottom-up venomics approaches and gel or chromatography based venom comparison, our combined approach enables a faster and more detailed comparison of venom proteomes from multiple individuals. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.004DOI Listing
February 2019
2 Reads

Exosomes in inflammation and inflammatory disease.

Proteomics 2019 Feb 13:e1800149. Epub 2019 Feb 13.

Department of Applied Biology & Chemical Technology, The Hong Kong Polytechnic University, Hung Hom, Hong Kong SAR, China.

Exosomes are a subset of extracellular vesicles released by all cell types and involved in local and systemic intercellular communication. In the past decade, research into exosomes has swelled as their important role in the mediation of health and disease has been increasingly established and acknowledged. Exosomes carry a diverse range of cargo including proteins, nucleic acids and lipids derived from their parental cell that, when delivered to the recipient cell, can confer pathogenic or therapeutic effects through modulation of immunity and inflammation. Read More

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http://doi.wiley.com/10.1002/pmic.201800149
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http://dx.doi.org/10.1002/pmic.201800149DOI Listing
February 2019
1 Read
3.807 Impact Factor

Proteomic Profiling of Mouse Helper T Cell Differentiation.

Proteomics 2019 Feb 13:e1800045. Epub 2019 Feb 13.

Department Viroscience, Erasmus MC, Rotterdam, The Netherlands.

Helper T cell differentiation is a key process in the regulation of adaptive immune responses. Here, we profile mouse Th1 and Th2 cells using high-throughput proteomics to increase our understanding of the molecular biology of Th differentiation to support the design of prophylactic and therapeutic intervention strategies for (infectious) diseases. Protein profiling of Th1/Th2 differentiated cells resulted in the quantification of almost 6000 proteins of which 41 were differentially expressed at FDR < 0. Read More

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http://dx.doi.org/10.1002/pmic.201800045DOI Listing
February 2019

Integrative analyses of myocardial lipidome and proteome implicate mitochondrial dysfunction in lethal ventricular tachyarrhythmia (LVTA) induced by acute myocardial ischemia (AMI).

J Proteomics 2019 Feb 4;197:14-22. Epub 2019 Feb 4.

Department of Forensic Medicine, Central laboratory, Shantou University Medical College, Shantou, 15041, China.. Electronic address:

Lethal ventricular tachyarrhythmia (LVTA) is the most prevalent electrophysiological event leading to sudden cardiac death (SCD). In this study, the myocardial lipidome and proteome were analysed in rats experiencing LVTA as a consequence of acute myocardial ischemia (AMI). Results showed that 257 lipid species and 814 myocardial proteins were disrupted during LVTA. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193003
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http://dx.doi.org/10.1016/j.jprot.2019.01.021DOI Listing
February 2019
6 Reads

Comparative proteomics and metabolomics of JAZ7-mediated drought tolerance in Arabidopsis.

J Proteomics 2019 Mar 5;196:81-91. Epub 2019 Feb 5.

Key Laboratory of Molecular Biology of Heilongjiang Province, College of Life Science, Heilongjiang University, Harbin 150080, China; Department of Biology, Genetics Institute, Plant Molecular and Cellular Biology, University of Florida, Gainesville, FL, USA; Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL, USA. Electronic address:

Jasmonates (JAs) are important phytohormones that regulate a wide range of plant processes, including growth, development and stress responses. Jasmonate ZIM-domain (JAZ) proteins are transcriptional repressors in JA signaling. Overexpression of JAZ7 was found to confer drought tolerance in Arabidopsis thaliana (A. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.001DOI Listing

Proteomics in Pathology: The Special Issue.

Proteomics Clin Appl 2019 Jan;13(1):e1800167

Institute of Pathology, University of Heidelberg, 69120, Heidelberg, Germany.

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http://dx.doi.org/10.1002/prca.201800167DOI Listing
January 2019
2.683 Impact Factor

iTRAQ-based analysis of leaf proteome identifies important proteins in secondary metabolite biosynthesis and defence pathways crucial to cross-protection against TMV.

J Proteomics 2019 Mar 3;196:42-56. Epub 2019 Feb 3.

Department of Biological Sciences, National University of Singapore (NUS), 14 Science Drive 4, Singapore 117543, Singapore; Temasek Life Sciences Laboratory, 1 Research Link, Singapore 117604, Singapore; National University of Singapore Suzhou Research Institute, Suzhou, Jiangsu 215123, China. Electronic address:

Cross-protection is a phenomenon in which infection with a mild virus strain protects host plants against subsequent infection with a closely related severe virus strain. This study showed that a mild strain mutant virus, Tobacco mosaic virus (TMV)-43A could cross protect Nicotiana benthamiana plants against wild-type TMV. Furthermore, we investigated the host responses at the proteome level to identify important host proteins involved in cross-protection. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.002DOI Listing
March 2019
2 Reads
3.888 Impact Factor

Quantitative Proteome Analysis of Brain Subregions and Spinal Cord from Experimental Autoimmune Encephalomyelitis Mice by TMT-Based Mass Spectrometry.

Proteomics 2019 Feb 6:e1800355. Epub 2019 Feb 6.

Doping Control Center, Korea Institute of Science and Technology (KIST), Seoul, 02792, Korea.

Multiple sclerosis (MS) is an autoimmune disease of the central nervous system (CNS); its cause is unknown. To understand the pathogenesis of MS, researchers often use the experimental autoimmune encephalomyelitis (EAE) mouse model. Here, the aim is to build a proteome map of the biological changes that occur during MS at the major onset sites-the brain and the spinal cord. Read More

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http://dx.doi.org/10.1002/pmic.201800355DOI Listing
February 2019
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Comparative Proteomic Analysis Reveals the Up-Regulation of Ketogenesis in Cardiomyocytes Differentiated from Induced Pluripotent Stem Cells.

Proteomics 2019 Feb 6:e1800284. Epub 2019 Feb 6.

BK21 Plus KNU Multi-Omics based Creative Drug Research Team, College of Pharmacy, Research Institute of Pharmaceutical Sciences, Kyungpook National University, Daegu, 41566, Republic of Korea.

Diverse metabolic pathways, such as the tricarboxylic acid cycle, pyruvate metabolism, and oxidative phosphorylation, regulate the differentiation of induced pluripotent stem cells (iPSCs) to cells of specific lineages and organs. Here, we characterized the protein dynamics during cardiac differentiation of human iPSCs into cardiomyocytes (CMs). Differentiation was induced by IWP2, a Wnt signaling inhibitor, and confirmed by the mRNA and protein expression of cTnT and MLC2A in CMs. Read More

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https://onlinelibrary.wiley.com/doi/abs/10.1002/pmic.2018002
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http://dx.doi.org/10.1002/pmic.201800284DOI Listing
February 2019
2 Reads

Proteomics in Drug Development: the Dawn of a New Era?

Proteomics Clin Appl 2019 Feb 5:e1800087. Epub 2019 Feb 5.

Mosaiques Diagnostics GmbH, Hannover, Germany.

Mass spectrometry offers the potential of acquiring high resolution data depicting the functional status of a group of healthy or disease individuals, according to the different conditions. As most of the drugs are currently targeting proteins, proteomics has a dual value, both in the discovery of new molecules as therapeutic targets, but also as a methodology to perform high throughput drug profiling. As there is an evident need for drugs to be improved in terms of efficacy, a mechanistic insight for downstream effectors can be valuable in order to predict side effects and resistance mechanisms. Read More

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http://dx.doi.org/10.1002/prca.201800087DOI Listing
February 2019

Advances in the proteomics of amniotic fluid to detect biomarkers for chromosomal abnormalities and fetomaternal complications during pregnancy.

Expert Rev Proteomics 2019 Feb 5:1-10. Epub 2019 Feb 5.

a Shobhaben Pratapbhai Patel School of Pharmacy and Technology Management , SVKM'S NMIMS , V.L. Mehta Road, Vile Parle west, Mumbai - 400056 , India.

Introduction: Amniotic fluid (AF) is a dynamic and complex mixture that reflects the physiological condition of developing fetus. In the last decade, proteomic analysis of AF for 16-18 weeks normal pregnancy has been done for the composition and functions of this fluid. Other body fluids such as urine, sweat, tears, etc. Read More

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http://dx.doi.org/10.1080/14789450.2019.1578213DOI Listing
February 2019
1 Read

Standard abbreviations.

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Proteomics 2019 Feb;19(3):e1970014

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http://dx.doi.org/10.1002/pmic.201970014DOI Listing
February 2019

Mass spectrometry-based Shiga toxin identification: A clinical validation.

J Proteomics 2019 Feb 1. Epub 2019 Feb 1.

National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada; Department of Human Anatomy and Cell Sciences, Faculty of Medicine, University of Manitoba, Winnipeg, Manitoba, Canada. Electronic address:

After we published our preliminary study on the use of liquid chromatography-tandem mass spectrometry (LC-MS/MS) and curated E. coli toxin databases on the identification of E. coli Shiga toxins (Stxs) in the Journal of Proteomics in year 2018, we were encouraged to further refine the method and test clinical isolates. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.020DOI Listing
February 2019

Proteome analysis of non-small cell lung cancer cell line secretomes and patient sputum reveals biofluid biomarker candidates for cisplatin response prediction.

J Proteomics 2019 Mar 30;196:106-119. Epub 2019 Jan 30.

Amsterdam UMC, Vrije Universiteit Amsterdam, Department of Medical Oncology, Cancer Center Amsterdam, 1081 HV Amsterdam, the Netherlands. Electronic address:

Molecular markers are urgently needed to select non-small cell lung cancer (NSCLC) patients most likely to benefit from platinum-based chemotherapies. Of particular interest are proteins that can be found in biofluids like sputum for non-invasive detection. Therefore, we profiled the secretomes of 6 NSCLC cell lines with varying IC50-values for cisplatin, using label-free GeLC-MS/MS-based proteomics. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.018DOI Listing

Univariate and classification analysis reveals potential diagnostic biomarkers for early stage ovarian cancer Type 1 and Type 2.

J Proteomics 2019 Mar 30;196:57-68. Epub 2019 Jan 30.

Department of Obstetrics and Gynecology, Institute of Clinical Sciences, Sahlgrenska Cancer Center, University of Gothenburg, Gothenburg, Sweden. Electronic address:

Biomarkers for early detection of ovarian tumors are urgently needed. Tumors of the ovary grow within cysts and most are benign. Surgical sampling is the only way to ensure accurate diagnosis, but often leads to morbidity and loss of female hormones. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.017DOI Listing
March 2019
2 Reads

Molecular pathways of varicocele and its repair - A paired labelled shotgun proteomics approach.

J Proteomics 2019 Mar 30;196:22-32. Epub 2019 Jan 30.

Department of Surgery, Division of Urology, Human Reproduction Section, Universidade Federal de São Paulo, São Paulo, Brazil. Electronic address:

Varicocelectomy is associated to improved semen quality and sperm functional quality, but individual response is highly variable. Thus, a prospective study was performed including 25 men who collected a semen sample before and 12 months after subinguinal microsurgical varicocelectomy. Semen analysis, sperm functional analysis, and seminal plasma proteomic analysis was performed before and 12 months after varicocelectomy, and according to improvement or not of semen quality (positive and negative outcome). Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193002
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http://dx.doi.org/10.1016/j.jprot.2019.01.019DOI Listing
March 2019
3 Reads

Improving MHC-I Ligand Identifications from LC-MS/MS Data by Incorporating Allelic Peptide Motifs.

Proteomics 2019 Feb 1:e1800458. Epub 2019 Feb 1.

Department of Microbiology and Immunology, Dalhousie University, Halifax, B3H 4R2, Canada.

MHC class I (MHC-I)-bound ligands play a pivotal role in CD8 T cell immunity and are hence of major interest in understanding and designing immunotherapies. One of the most commonly utilized approaches for detecting MHC ligands is LC-MS/MS. Unfortunately, the effectiveness of current algorithms to identify MHC ligands from LC-MS/MS data is limited because the search algorithms used were originally developed for proteomics approaches detecting tryptic peptides. Read More

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http://dx.doi.org/10.1002/pmic.201800458DOI Listing
February 2019

On the characterisation of the porcine gland-specific salivary proteome.

J Proteomics 2019 Mar 29;196:92-105. Epub 2019 Jan 29.

Laboratory of Applied Veterinary Morphology, Department of Veterinary Sciences, Faculty of Pharmaceutical, Biomedical and Veterinary Sciences, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk, Belgium; Department of Morphology, Faculty of Veterinary Medicine, Ghent University, Salisburylaan 133, 9820 Merelbeke, Belgium. Electronic address:

To expand the knowledge on the porcine salivary proteome, secretions from the three major salivary glands were collected from anaesthetised piglets. Pilocarpine and isoproterenol were simultaneously injected intraperitoneally to increase the volume and protein concentration of the saliva, respectively. The protein composition and relative protein-specific abundance of saliva secreted by the parotid gland and by the mandibular and monostomatic sublingual gland, were determined using iTRAQ. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.016DOI Listing

Sensitive profiling of cell surface proteome by using an optimized biotinylation method.

J Proteomics 2019 Mar 29;196:33-41. Epub 2019 Jan 29.

CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS), Dalian 116023, China. Electronic address:

Cell surface proteins are responsible for many critical functions. Systematical profiling of these proteins would provide a unique molecular fingerprint to classify cells and provide important information to guide immunotherapy. Cell surface biotinylation method is one of the effective methods for cell surface proteome profiling. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.015DOI Listing

Impact of the General Data Protection Regulation on Clinical Proteomics Research.

Authors:
Elena Critselis

Proteomics Clin Appl 2019 Feb 1:e1800199. Epub 2019 Feb 1.

Proteomics Facility, Center for Systems Biology, Biomedical Research Foundation of the Academy of Athens, Athens, 11527, Greece.

The recently implemented General Data Protection Regulation (GDPR) has promising attributes for ensuring the protection of personal data collected and processed for clinical proteomic investigations. However, there exist ever increasing alarming concerns regarding its implications upon the future of clinical proteomics research both within and beyond the European Union. The main issues of concern regard GDPR legislative requirements for informed consent for study subjects' data collection and processing, data anonymization, and data storage and/or sharing, particularly in research areas which readily utilize databanks and biobanks, such as clinical proteomics investigations. Read More

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http://dx.doi.org/10.1002/prca.201800199DOI Listing
February 2019

Cutting-edge multi-level analytical and structural characterization of antibody-drug conjugates: present and future.

Expert Rev Proteomics 2019 Feb 1:1-26. Epub 2019 Feb 1.

c Laboratoire de Spectrométrie de Masse BioOrganique, IPHC UMR 7178 , Université de Strasbourg, CNRS , Strasbourg , France.

Introduction: The development and optimization of antibody drug conjugates (ADCs) rely on improving their analytical and bioanalytical characterization, by assessing critical quality attributes (CQAs). Among the CQAs, the glycoprofile, drug load distribution (DLD), the amount of unconjugated antibody (D0), the average drug-to-antibody ratio (DAR), the drug conjugation sites and the residual drug-linker and related product proportions (SMDs) in addition to high and low molecular weight species (H/LMWS), and charge variants are the most important ones. Areas covered: The analytical and structural toolbox for the characterization of 1, 2 and 3 generation ADCs was significantly extended in the last 3 years. Read More

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http://dx.doi.org/10.1080/14789450.2019.1578215DOI Listing
February 2019
1 Read

Plasma Proteome Signature of Sepsis: a Functionally Connected Protein Network.

Proteomics 2019 Jan 31:e1800389. Epub 2019 Jan 31.

Cancer Metabolism and Signaling Networks Program, Sanford Burnham Prebys Medical Discovery Institute, La Jolla, CA, 9207, USA.

Sepsis is an extreme host response to infection that leads to loss of organ function and cardiovascular integrity. Mortality from sepsis is on the rise. Despite more than three decades of research and clinical trials, specific diagnostic and therapeutic strategies for sepsis are still absent. Read More

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http://dx.doi.org/10.1002/pmic.201800389DOI Listing
January 2019

Neoantigens in Chronic Obstructive Pulmonary Disease and Lung Cancer: A Point of View.

Proteomics Clin Appl 2019 Jan 31:e1800093. Epub 2019 Jan 31.

Department of Neurology, Erasmus MC, Rotterdam, 3015 GE, Netherlands.

The goal of this manuscript is to explore the role of clinical proteomics for detecting mutations in chronic obstructive pulmonary disease (COPD) and lung cancer by mass spectrometry-based technology. COPD and lung cancer caused by smoke inhalation are most likely linked by challenging the immune system via partly shared pathways. Genome-wide association studies have identified several single nucleotide polymorphisms which predispose an increased susceptibility to COPD and lung cancer. Read More

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http://doi.wiley.com/10.1002/prca.201800093
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http://dx.doi.org/10.1002/prca.201800093DOI Listing
January 2019
3 Reads

Implementation of Proteomics in Clinical Trials.

Authors:
Tianlin He

Proteomics Clin Appl 2019 Jan 31:e1800198. Epub 2019 Jan 31.

Mosaiques Diagnostics GmbH, 30659, Hannover, Germany.

The application of protein (or peptide) biomarkers in clinical studies is a dynamic, ever-growing field. The introduction of clinical proteomics/peptidomics, such as mass spectrometry-based assays and multiplexed antibody-based protein arrays, has reshaped the landscape of biomarker identification and validation, allowing the discovery of novel biomarkers at an unprecedented rate and reliability. To reflect the current status with respect to implementation of protein/peptide biomarkers, an investigation of the most recent (last 6 years) clinical studies from clinicaltrials. Read More

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http://dx.doi.org/10.1002/prca.201800198DOI Listing
January 2019

Origins and clinical relevance of proteoforms in pediatric malignancies.

Expert Rev Proteomics 2019 Mar 18;16(3):185-200. Epub 2019 Feb 18.

a Department of Cell and Developmental Biology , University of British Columbia , Vancouver , BC , Canada.

Introduction: Cancer changes the proteome in complex ways that reach well beyond simple changes in protein abundance. Genomic and transcriptional variations and post-translational protein modification create functional variants of a protein, known as proteoforms. Childhood cancers have fewer genomic alterations but show equally dramatic phenotypic changes as malignant cells in adults. Read More

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http://dx.doi.org/10.1080/14789450.2019.1575206DOI Listing

Plasma Proteomics Analysis Reveals Dysregulation of Complement Proteins and Inflammation in Acquired Obesity-A Study on Rare BMI-Discordant Monozygotic Twin Pairs.

Proteomics Clin Appl 2019 Jan 27:e1800173. Epub 2019 Jan 27.

Obesity Research Unit, Research Programs Unit, Diabetes and Obesity Research Program, University of Helsinki, 00014, Helsinki, Finland.

Purpose: The purpose of this study is to elucidate the effect of excess body weight and liver fat on the plasma proteome without interference from genetic variation.

Experimental Design: The effect of excess body weight is assessed in young, healthy monozygotic twins from pairs discordant for body mass index (intrapair difference (Δ) in BMI > 3 kg m , n = 26) with untargeted LC-MS proteomics quantification. The effect of liver fat is interrogated via subgroup analysis of the BMI-discordant twin cohort: liver fat discordant pairs (Δliver fat > 2%, n = 12) and liver fat concordant pairs (Δliver fat < 2%, n = 14), measured by magnetic resonance spectroscopy. Read More

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http://dx.doi.org/10.1002/prca.201800173DOI Listing
January 2019
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Hsp74/14-3-3σ Complex Mediates Centrosome Amplification by High Glucose, Insulin and Palmitic Acid.

Proteomics 2019 Jan 28:e1800197. Epub 2019 Jan 28.

School of Life Sciences, Shanxi University, Taiyuan, Shanxi, 030006, P. R. China.

We have reported recently that type 2 diabetes promotes centrosome amplification via 14-3-3σ/ROCK1complex. In the present study, we characterized 14-3-3σ interacting proteins and investigated their roles in the centrosome amplification by high glucose, insulin and palmitic acid. Co-immunoprecipitation in combination with mass spectrometry analysis identified 134 proteins that interacted with 14-3-3σ, which included heat shock 70 kDa protein 4 (Hsp74). Read More

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http://doi.wiley.com/10.1002/pmic.201800197
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http://dx.doi.org/10.1002/pmic.201800197DOI Listing
January 2019
4 Reads
3.807 Impact Factor

Proteomic profiling of giant skeletal muscle proteins.

Expert Rev Proteomics 2019 Mar 8;16(3):241-256. Epub 2019 Feb 8.

a Department of Biology , Maynooth University, National University of Ireland , Maynooth , Ireland.

Introduction: Distinct subtypes of contractile fibres are highly diverse in their proteomic profile and greatly adaptable to physiological or pathological challenges. A striking biochemical feature of heterogeneous skeletal muscle tissues is the presence of a considerable number of extremely large protein species, which often present a bioanalytical challenge for the systematic separation and identification of muscle proteomes during large-scale screening surveys. Areas covered: This review outlines the proteomic characterization of skeletal muscles with a special focus on giant proteins of the sarcomere, the cytoskeleton and the sarcoplasmic reticulum. Read More

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http://dx.doi.org/10.1080/14789450.2019.1575205DOI Listing
March 2019
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Application of proteomics in studying bacterial persistence.

Expert Rev Proteomics 2019 Mar 6;16(3):227-239. Epub 2019 Feb 6.

a Department of Chemical and Biological Engineering , The Hong Kong University of Science & Technology , Kowloon , Hong Kong.

Introduction: Persisters, a small subpopulation of bacterial cells that can survive antibiotic treatment due to transient growth inhibition, pose a serious threat in clinics. Given the nature of persistence as an emergent property of a biological network, proteomics is well-suited to study this phenomenon. Areas covered: In this review, we introduce the phenomenon of bacterial persistence, review previous proteomics studies on persisters, discuss challenges in studying persisters by proteomics, and provide future perspectives in applying proteomics to study persisters. Read More

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http://dx.doi.org/10.1080/14789450.2019.1575207DOI Listing
March 2019
5 Reads

Special Issue on Extracellular Vesicles and Exosomes.

Proteomics 2019 Jan;19(1-2):e1800434

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http://dx.doi.org/10.1002/pmic.201800434DOI Listing
January 2019
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Standard abbreviations.

Authors:

Proteomics 2019 Jan;19(1-2):e1970005

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http://dx.doi.org/10.1002/pmic.201970005DOI Listing
January 2019
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Proteomics in Kidney Allograft Transplantation-Application of Molecular Pathway Analysis for Kidney Allograft Disease Phenotypic Biomarker Selection.

Proteomics Clin Appl 2019 Jan 25:e1800091. Epub 2019 Jan 25.

Nephrology - Transplantation Department, UMR_S. INSERM UMR_S 1109, ImmunoRhumatologie Moléculaire, Fédération Hospitalo-Universitaire OMICARE, Fédération de Médecine Translationnelle de Strasbourg, Institut d'Immunologie et d'Hématologie, 67085, Strasbourg, France.

There is a need for accurate, robust, non-invasive methods to provide early diagnosis of graft lesions after kidney transplantation. A multitude of proteomic biomarkers for the major kidney allograft disease phenotypes defined by the BANFF classification criteria have been described in literature. None of these biomarkers have been established in the clinic. Read More

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http://dx.doi.org/10.1002/prca.201800091DOI Listing
January 2019
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2.683 Impact Factor

Platelet membrane lipid rafts protein composition varies following GPVI and CLEC-2 receptors activation.

J Proteomics 2019 Mar 22;195:88-97. Epub 2019 Jan 22.

Platelet Proteomics Group, Center for Research in Molecular Medicine and Chronic Diseases (CIMUS), Universidad de Santiago de Compostela, Instituto de Investigación Sanitaria (IDIS), Santiago de Compostela, Spain. Electronic address:

Lipid rafts are membrane microdomains that have been proposed to play an important role in several platelet-signalling cascades, including those mediated by the receptors Glycoprotein VI (GPVI), and C-type lectin domain family 1 member B (CLEC-2), both involved in thrombus formation. We have performed a LC-MS/MS proteomic analysis of lipid rafts isolated from platelets activated through GPVI and CLEC-2 as well as from resting platelets. Our aim was to determine the magnitude of changes in lipid rafts protein composition and to elucidate the relevance of these alterations in platelet function. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.014DOI Listing
March 2019
4 Reads

Molecular characterization and in vitro interaction analysis of Op14-3-3 μ protein from Opuntia ficus-indica: identification of a new client protein from shikimate pathway.

J Proteomics 2019 Jan 22. Epub 2019 Jan 22.

IPICyT, Instituto Potosino de Investigación Científica y Tecnológica A.C., San Luis Potosí 78216, Mexico. Electronic address:

In plants, 14-3-3 proteins are important modulators of protein-protein interactions in response to environmental stresses. The aim of the present work was to characterize one Opuntia ficus-indica 14-3-3 and get information about its client proteins. To achieve this goal, O. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.013DOI Listing
January 2019
5 Reads