1,133 results match your criteria Expert Review of Proteomics [Journal]


Challenges and promise at the interface of metaproteomics and genomics: an overview of recent progress in metaproteogenomic data analysis.

Expert Rev Proteomics 2019 Apr 19. Epub 2019 Apr 19.

b VIB - UGent Center for Medical Biotechnology , Ghent , Belgium.

Introduction: The study of microbial communities based on the combined analysis of genomic and proteomic data - called metaproteogenomics - has gained increased research attention in recent years. This relatively young field aims to elucidate the functional and taxonomic interplay of proteins in microbiomes and its implications on human health and the environment. Areas covered: This article reviews bioinformatics methods and software tools dedicated to the analysis of data from metaproteomics and metaproteogenomics experiments. Read More

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http://dx.doi.org/10.1080/14789450.2019.1609944DOI Listing

Quantitative proteomic analysis of venom from Southern India common krait (Bungarus caeruleus) and identification of poorly immunogenic toxins by immune-profiling against commercial antivenom.

Expert Rev Proteomics 2019 Apr 19. Epub 2019 Apr 19.

a Microbial Biotechnology and Protein Research Laboratory, Department of Molecular Biology and Biotechnology , Tezpur University , Tezpur 784028 , Assam , India.

Objectives: To study the venom proteome composition of Southern India (SI) Common Krait (Bungarus caeruleus) and immunological cross-reactivity between venom against commercial antivenom.

Methods: Proteomic analysis was done by nano LC-MS/MS and toxins were quantitated by label-free analysis. The immunological cross-reactivity of venom towards polyvalent antivenom (PAV) was assessed by ELISA, Immunoblotting, and immuno-chromatographic methods. Read More

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http://dx.doi.org/10.1080/14789450.2019.1609945DOI Listing

Plasma proteomics and the paediatric patient.

Expert Rev Proteomics 2019 Apr 18. Epub 2019 Apr 18.

a Haematology Research Laboratory, Murdoch Children's Research Institute , Melbourne Australia.

Introduction: Plasma proteomics has been utilised extensively for studies that investigate various disease settings (e.g. cardiovascular disease), as well as to monitor the effect of pharmaceuticals on the plasma proteome (e. Read More

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https://www.tandfonline.com/doi/full/10.1080/14789450.2019.1
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http://dx.doi.org/10.1080/14789450.2019.1608186DOI Listing
April 2019
1 Read

Proteotyping pluripotency with mass spectrometry.

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

a Proteomics Unit , Spanish National Cancer Research Centre (CNIO) , Madrid , Spain.

Introduction: Pluripotency emerges transiently during embryogenesis in two main forms with different developmental potential, termed naïve and primed states. Importantly, these pluripotent states can be recapitulated in vitro under specific culture conditions, representing a unique model to study the regulatory principles of development and cellular plasticity. Areas covered: A complex network of signaling pathways that senses intrinsic and extrinsic cues controls the fine balance between self-renewal and differentiation. Read More

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http://dx.doi.org/10.1080/14789450.2019.1604229DOI Listing
April 2019
4 Reads
2.896 Impact Factor

Molecular insights into cancer drug resistance from a proteomics perspective.

Expert Rev Proteomics 2019 Mar 29:1-17. Epub 2019 Mar 29.

a West China School of Basic Medical Sciences & Forensic Medicine , Sichuan University , Chengdu , PR China.

Introduction: Resistance to chemotherapy and development of specific and effective molecular targeted therapies are major obstacles facing current cancer treatment. Comparative proteomic approaches have been employed for the discovery of putative biomarkers associated with cancer drug resistance and have yielded a number of candidate proteins, showing great promise for both novel drug target identification and personalized medicine for the treatment of drug-resistant cancer. Areas covered: Herein, we review the recent advances and challenges in proteomics studies on cancer drug resistance with an emphasis on biomarker discovery, as well as understanding the interconnectivity of proteins in disease-related signaling pathways. Read More

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http://dx.doi.org/10.1080/14789450.2019.1601561DOI Listing
March 2019
3 Reads

Advances, challenges and tools in characterizing bacterial serine, threonine and tyrosine kinases and phosphorylation target sites.

Expert Rev Proteomics 2019 Mar 28:1-11. Epub 2019 Mar 28.

b Department of Animal and Food Sciences , University of Delaware , Newark , DE , USA.

Introduction: The cellular response to infection by bacterial pathogens involves a complex and highly regulated series of pathways that carry messages to various parts of the cell. These messages are transferred using post-translational modifications including phosphorylation by kinases. Understanding the host's signaling pathways is valuable in identifying potential treatment targets, but the bacterial signaling pathways and host-pathogen crosstalk are equally important to the development of therapeutics. Read More

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http://dx.doi.org/10.1080/14789450.2019.1601015DOI Listing
March 2019
1 Read

Proteomic profiling of urine: implications for lupus nephritis.

Expert Rev Proteomics 2019 Apr 18;16(4):303-313. Epub 2019 Mar 18.

b Division of Nephrology & Hypertension, Department of Pediatrics , University of Cincinnati College of Medicine , Cincinnati , OH , USA.

Introduction: Lupus nephritis (LN) is a common and significant manifestation, affecting 60% of adults and 80% of children with systemic lupus erythematosus, with up to 30% of patients progressing to end stage renal disease. There remains an unmet need for non-invasive markers of disease activity, damage, and response to therapy. In addition, non-invasive biomarkers that predict therapeutic efficacy are needed to enable cost-effective clinical trials of novel agents. Read More

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http://dx.doi.org/10.1080/14789450.2019.1592681DOI Listing
April 2019
1 Read

Protein biomarkers for cardiorenal syndrome.

Expert Rev Proteomics 2019 Apr 22;16(4):325-336. Epub 2019 Mar 22.

a Biotechnology Division, Biomedical Research Foundation , Academy of Athens (BRFAA) , Athens , Greece.

Introduction: The term cardiorenal syndrome (CRS) describes the progressive pathology and interactions that develop upon heart and kidney failure. The definition of CRS is not firmly established and has evolved gradually during the last decade. The main clinical challenges associated with CRS are the lack of tools for early disease diagnosis and the inability to predict the development of cardiorenal pathophysiology. Read More

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https://www.tandfonline.com/doi/full/10.1080/14789450.2019.1
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http://dx.doi.org/10.1080/14789450.2019.1592682DOI Listing
April 2019
2 Reads

Proteomic analysis of synovial fluid: current and potential uses to improve clinical outcomes.

Expert Rev Proteomics 2019 Apr 22;16(4):287-302. Epub 2019 Feb 22.

a Comparative Musculoskeletal Biology, Institute of Ageing and Chronic Disease , University of Liverpool , Liverpool , UK.

Introduction: Synovial fluid (SF) is in close proximity to tissues which are primarily altered during articular disease and has significant potential to better understand the underlying disease pathogeneses of articular pathologies and biomarker discovery. Although development of mass spectrometry-based methods has allowed faster and higher sensitivity techniques, interrogation of the SF proteome has been hindered by its large protein concentration dynamic range, impeding quantification of lower abundant proteins. Areas covered: Recent advances have developed methodologies to reduce the large protein concentration dynamic range of SF and subsequently allow deeper exploration of the SF proteome. Read More

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http://dx.doi.org/10.1080/14789450.2019.1578214DOI Listing
April 2019
1 Read

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

Expert Rev Proteomics 2019 Apr 6;16(4):363-373. Epub 2019 Mar 6.

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 , 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 works of literature. Read More

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

Recent advances in the metabolomic study of bladder cancer.

Expert Rev Proteomics 2019 Apr 26;16(4):315-324. Epub 2019 Feb 26.

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

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

Expert Rev Proteomics 2019 Apr 13;16(4):277-286. Epub 2019 Feb 13.

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
April 2019
2 Reads

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

Expert Rev Proteomics 2019 Apr 18;16(4):337-362. Epub 2019 Feb 18.

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
April 2019
3 Reads

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
March 2019
1 Read

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
1 Read

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

Mining for missed sORF-encoded peptides.

Expert Rev Proteomics 2019 Mar 13;16(3):257-266. Epub 2019 Feb 13.

a The Engineering Research Center of Synthetic Polypeptide Drug Discovery and Evaluation of Jiangsu Province , China Pharmaceutical University , Nanjing , China.

Introduction: Small open reading frames (sORFs) with potential protein-coding capacity have been disclosed in various transcripts, including long noncoding RNAs (LncRNAs), mRNAs (5'-upstream, coding domain, and 3'-downstream), circular RNAs, pri-miRNAs, and ribosomal RNAs (rRNAs). Recent characterization of several sORF-encoded peptides (SEPs or micropeptides) revealed their important roles in many fundamental biological processes in a broad range of species from yeast to human. The success in the mining of micropeptides attributes to the advanced bioinformatics and high-throughput sequencing techniques. Read More

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http://dx.doi.org/10.1080/14789450.2019.1571919DOI Listing
March 2019
1 Read

From omics technologies to personalized transfusion medicine.

Expert Rev Proteomics 2019 Mar 28;16(3):215-225. Epub 2019 Jan 28.

a Department of Biochemistry and Molecular Genetics , University of Colorado Denver - Anschutz Medical Campus , Aurora , CO , USA.

Introduction: Blood transfusion is the single most frequent in-hospital medical procedure, a life-saving intervention for millions of recipients worldwide every year. Storage in the blood bank is an enabling strategy for this critical procedure, as it logistically solves the issue of making ~110 million units available for transfusion every year. Unfortunately, storage in the blood bank promotes a series of biochemical and morphological changes to the red blood cell that compromise the integrity and functionality of the erythrocyte in vitro and in animal models, and could negatively impact transfusion outcomes in the recipient. Read More

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http://dx.doi.org/10.1080/14789450.2019.1571917DOI Listing
March 2019
3 Reads

Proteogenomics in the context of the Human Proteome Project (HPP).

Expert Rev Proteomics 2019 Mar 28;16(3):267-275. Epub 2019 Jan 28.

a Bioinformatics Platform, Center for Applied Medical Research , University of Navarra , Pamplona , Spain.

Introduction: The technological and scientific progress performed in the Human Proteome Project (HPP) has provided to the scientific community a new set of experimental and bioinformatic methods in the challenging field of shotgun and SRM/MRM-based Proteomics. The requirements for a protein to be considered experimentally validated are now well-established, and the information about the human proteome is available in the neXtProt database, while targeted proteomic assays are stored in SRMAtlas. However, the study of the missing proteins continues being an outstanding issue. Read More

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http://dx.doi.org/10.1080/14789450.2019.1571916DOI Listing
March 2019
2 Reads

Understanding the role of chondrocytes in osteoarthritis: utilizing proteomics.

Expert Rev Proteomics 2019 Mar 31;16(3):201-213. Epub 2019 Jan 31.

a Laboratory of Biology, Faculty of Medicine, School of Health Sciences , University of Thessaly , Larissa , Greece.

Introduction: Proteomic analyses have been acknowledged to carry a significant prospective in elucidating the pathogenesis of several diseases, including osteoarthritis (OA). But it has not been an easy road: major technical issues, mainly derived from the complex and rigid nature of the cartilage tissue, had to be faced; an obstacle that led to the development of different approaches. Areas covered: In this review, we categorized the proteomic studies undertaken (proteomic analyses of the cartilage, cartilage explants, cultured chondrocytes, and chondrocytes' secretome) as part of the different strategies developed in order to overcome tissue and disease-specific challenges. Read More

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http://dx.doi.org/10.1080/14789450.2019.1571918DOI Listing
March 2019
4 Reads
2.896 Impact Factor

Current trends in protein acetylation analysis.

Expert Rev Proteomics 2019 02 24;16(2):139-159. Epub 2018 Dec 24.

a Universite Grenoble Alpes - LBFA and BEeSy, PROMETHEE, Proteomic Platform , Saint-Martin-d'Heres , France.

Introduction: Acetylation is a widely occurring post-translational modification (PTM) of proteins that plays a crucial role in many cellular physiological and pathological processes. Over the last decade, acetylation analyses required the development of multiple methods to target individual acetylated proteins, as well as to cover a broader description of acetylated proteins that comprise the acetylome. Areas covered: This review discusses the different types of acetylation (N-ter/K-/O-acetylation) and then describes some major strategies that have been reported in the literature to detect, enrich, identify and quantify protein acetylation. Read More

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http://dx.doi.org/10.1080/14789450.2019.1559061DOI Listing
February 2019
1 Read

Exploring neuropeptide signalling through proteomics and peptidomics.

Expert Rev Proteomics 2019 02 21;16(2):131-137. Epub 2018 Dec 21.

a Animal Physiology and Neurobiology, Department of Biology , KU Leuven , Leuven , Belgium.

Introduction: Neuropeptides are neuro-endocrine signaling molecules capable of signaling as neurotransmitters, neuromodulators or neurohormones. Studying how neuropeptide signaling is integrated in endocrine pathways and how neuropeptides regulate endogenous processes is crucial to understanding how multicellular organisms respond to environmental and internal cues. Areas covered: This review will cover proteomics and peptidomics approaches used in researching peptide signaling systems and breakthroughs that were achieved in this field. Read More

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http://dx.doi.org/10.1080/14789450.2019.1559733DOI Listing
February 2019
3 Reads

Proteomic analysis and antivenomics study of Western India Naja naja venom: Correlation between venom composition and clinical manifestations of cobra bite in this region.

Expert Rev Proteomics 2018 Dec 17. Epub 2018 Dec 17.

a Microbial Biotechnology and Protein Research Laboratory, Department of Molecular Biology and Biotechnology , Tezpur University , Tezpur 784028 , Assam , India.

Background: Snakebite is a severe problem in the tropical countries including Indian subcontinent. Premier cases of cobra bites are being reported from western India (WI).

Research Design And Methods: The proteome of WI N. Read More

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http://dx.doi.org/10.1080/14789450.2019.1559735DOI Listing
December 2018
4 Reads

Three-way interaction model with switching mechanism as an effective strategy for tracing functionally-related genes.

Expert Rev Proteomics 2018 Dec 17. Epub 2018 Dec 17.

a Department of Basic Sciences, Faculty of Paramedical Sciences , Shahid Beheshti University of Medical Sciences , Tehran , Iran .

Introduction: Identification of functionally-related genes is an important step in understanding biological systems. The most popular strategy to infer functional dependence is to study pairwise correlations between gene expression levels. However, certain functionally-related genes may have a low expression correlationdue to their nonlinear interactions. Read More

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http://dx.doi.org/10.1080/14789450.2019.1559734DOI Listing
December 2018
1 Read
2.896 Impact Factor

Cancer biomarker discovery and translation: proteomics and beyond.

Expert Rev Proteomics 2019 02 24;16(2):93-103. Epub 2018 Dec 24.

a Department of Pathology , Johns Hopkins University School of Medicine , Baltimore , MD , USA.

Introduction: Cancer is often diagnosed at late stages when the chance of cure is relatively low and although research initiatives in oncology discover many potential cancer biomarkers, few transition to clinical applications. This review addresses the current landscape of cancer biomarker discovery and translation with a focus on proteomics and beyond. Areas covered: The review examines proteomic and genomic techniques for cancer biomarker detection and outlines advantages and challenges of integrating multiple omics approaches to achieve optimal sensitivity and address tumor heterogeneity. Read More

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http://dx.doi.org/10.1080/14789450.2019.1559062DOI Listing
February 2019
2 Reads

Proteomic insights into lysine acetylation and the implications for medical research.

Expert Rev Proteomics 2019 01 17;16(1):1-3. Epub 2018 Dec 17.

a Laboratorio de Proteómica, Centro de Ciencias Genómicas , Universidad Nacional Autónoma de México , Cuernavaca , México.

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http://dx.doi.org/10.1080/14789450.2019.1557050DOI Listing
January 2019
2 Reads

Contribution of Plasmodium immunomics: potential impact for serological testing and surveillance of malaria.

Expert Rev Proteomics 2018 Dec 4. Epub 2018 Dec 4.

a Key Laboratory of Parasite and Vector Biology of the Chinese Ministry of Health , National Institute of Parasitic Diseases, Chinese Center for Disease Control and Prevention, National Centre for International Research on Tropical Diseases, WHO Collaborating Center for Tropical Diseases , Shanghai 200025 , People's Republic of China.

Introduction: Plasmodium vivax and P. knowlesi account together for a considerable share of the global burden of malaria, along with P. falciparum. Read More

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http://dx.doi.org/10.1080/14789450.2019.1554441DOI Listing
December 2018
4 Reads
2.896 Impact Factor

Proteomic approaches for cancer epigenetics research.

Expert Rev Proteomics 2018 Nov 27:1-15. Epub 2018 Nov 27.

b Department of Pathology and Laboratory Medicine, Perelman School of Medicine , University of Pennsylvania , Philadelphia , PA , USA.

Introduction: Epigenetic dysregulation drives or supports numerous human cancers. The chromatin landscape in cancer cells is often marked by abnormal histone post-translational modification (PTM) patterns and by aberrant assembly and recruitment of protein complexes to specific genomic loci. Mass spectrometry-based proteomic analyses can support the discovery and characterization of both phenomena. Read More

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http://dx.doi.org/10.1080/14789450.2019.1550363DOI Listing
November 2018
1 Read

The future of protein biomarker research in type 2 diabetes mellitus.

Expert Rev Proteomics 2019 02 27;16(2):105-115. Epub 2018 Nov 27.

a Translational Metabolic Laboratory, Department of Laboratory Medicine and Radboud Institute for Molecular Life Sciences , Radboud University Medical Center , Nijmegen , The Netherlands.

Introduction: The onset of type 2 diabetes mellitus (T2DM) is strongly associated with obesity and subsequent perturbations in immuno-metabolic responses. To understand the complexity of these systemic changes and better monitor the health status of people at risk, validated clinical biomarkers are needed. Omics technologies are increasingly applied to measure the interplay of genes, proteins and metabolites in biological systems, which is imperative in understanding molecular mechanisms of disease and selecting the best possible molecular biomarkers for clinical use. Read More

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http://dx.doi.org/10.1080/14789450.2018.1551134DOI Listing
February 2019
18 Reads

Post-translational and transcriptional dynamics - regulating extracellular vesicle biology.

Expert Rev Proteomics 2018 11 20:1-15. Epub 2018 Nov 20.

a Department of Biochemistry and Genetics , La Trobe Institute for Molecular Science, La Trobe University , Melbourne , Australia.

Introduction: Extracellular vesicles (EVs) are secreted into their extracellular environment, contain a specific repertoire of cellular cargo, and represent a novel vehicle for cell-cell communication. Protein post-translational modifications (PTMs) are emerging as major effectors of EV biology and function, and in turn, regulate cellular signaling. Areas covered: Discovery and investigation of PTMs such as methylation, glycosylation, acetylation, phosphorylation, sumoylation, and many others has established fundamental roles for PTMs within EVs and associated EV function. Read More

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https://www.tandfonline.com/doi/full/10.1080/14789450.2019.1
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http://dx.doi.org/10.1080/14789450.2019.1551135DOI Listing
November 2018
35 Reads

Current knowledge about the impact of microgravity on the proteome.

Expert Rev Proteomics 2018 Nov 19:1-12. Epub 2018 Nov 19.

a Department of Biology, Cell Biology , Friedrich-Alexander-University Erlangen-Nuremberg , Erlangen , Germany.

Introduction: Microgravity (µg) is an extreme stressor for plants, animals, and humans and influences biological systems. Humans in space experience various health problems during and after a long-term stay in orbit. Various studies have demonstrated structural alterations and molecular biological changes within the cellular milieu of plants, bacteria, microorganisms, animals, and cells. Read More

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http://dx.doi.org/10.1080/14789450.2019.1550362DOI Listing
November 2018
28 Reads

Glycomics of prostate cancer: updates.

Expert Rev Proteomics 2018 Nov 18:1-12. Epub 2018 Nov 18.

c Center for Advanced Materials , Qatar University , Doha , Qatar.

Introduction: Prostate cancer (PCa) is a life-threatening disease affecting millions of men. The current best PCa biomarker (level of prostate-specific antigen in serum) lacks specificity for PCa diagnostics and this is why novel PCa biomarkers in addition to the conventional ones based on biomolecules such as DNA, RNA and proteins need to be identified. Areas covered: This review details the potential of glycans-based biomarkers to become diagnostic, prognostic, predictive and therapeutic PCa biomarkers with a brief description of the innovative approaches applied to glycan analysis to date. Read More

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https://www.tandfonline.com/doi/full/10.1080/14789450.2019.1
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http://dx.doi.org/10.1080/14789450.2019.1549993DOI Listing
November 2018
7 Reads

The power of proteasome inhibition in multiple myeloma.

Expert Rev Proteomics 2018 12 14;15(12):1033-1052. Epub 2018 Nov 14.

b Medical Oncology , Dana-Farber Cancer Institute , Boston , MA , USA.

Introduction: Proteasome inhibitors (PIs) are therapeutic backbones of multiple myeloma treatment, with PI-based therapies being standards of care throughout the treatment algorithm. Proteasome inhibition affects multiple critical signaling pathways in myeloma cells and interacts synergistically with mechanisms of action of other conventional and novel agents, resulting in substantial anti-myeloma activity and at least additive effects. Areas covered: This review summarizes the biologic effects of proteasome inhibition in myeloma and provides an overview of the importance of proteasome inhibition to the current treatment algorithm. Read More

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http://dx.doi.org/10.1080/14789450.2018.1543595DOI Listing
December 2018
9 Reads

Small, but mighty? Searching for human microproteins and their potential for understanding health and disease.

Expert Rev Proteomics 2018 12 15;15(12):963-965. Epub 2018 Nov 15.

a Clayton Foundation Laboratories for Peptide Biology , The Salk Institute for Biological Studies , La Jolla , CA , USA.

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https://www.tandfonline.com/doi/full/10.1080/14789450.2018.1
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http://dx.doi.org/10.1080/14789450.2018.1547194DOI Listing
December 2018
6 Reads

Urinary proteomic biomarkers in oncology: ready for implementation?

Expert Rev Proteomics 2018 Nov 9:1-15. Epub 2018 Nov 9.

a Research and Development , Mosaiques Diagnostics GmbH , Hannover , Germany.

Introduction: Biomarkers are expected to improve the management of cancer patients by enabling early detection and prediction of therapeutic response. Proteins reflect a molecular phenotype, have high potential as biomarkers, and also are key targets for intervention. Given the ease of collection and proximity to certain tumors, the urinary proteome is a rich source of biomarkers and several proteins have been already implemented. Read More

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https://www.tandfonline.com/doi/full/10.1080/14789450.2018.1
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http://dx.doi.org/10.1080/14789450.2018.1547193DOI Listing
November 2018
10 Reads

Advances in understanding the role of angiotensin-regulated proteins in kidney diseases.

Expert Rev Proteomics 2018 Nov 9:1-16. Epub 2018 Nov 9.

b Nephrology , IIS-Fundacion Jimenez Diaz and Universidad Autonoma de Madrid , Madrid , Spain.

Introduction: Renin-angiotensin system (RAS) blockers are in clinical use to treat high blood pressure and proteinuric chronic kidney disease. However, RAS blockade is limited by the risk of hyperkalemia, angiotensin receptor blockers are not clinically superior to angiotensin-converting enzyme inhibitors and dual RAS blockade is formally contraindicated. Areas covered: We review the regulation of protein expression and activation by angiotensin II and RAS blockers as it contributes to kidney disease. Read More

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https://www.tandfonline.com/doi/full/10.1080/14789450.2018.1
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http://dx.doi.org/10.1080/14789450.2018.1545577DOI Listing
November 2018
15 Reads

Lost in the crowd: identifying targetable MHC class I neoepitopes for cancer immunotherapy.

Expert Rev Proteomics 2018 12 14;15(12):1065-1077. Epub 2018 Nov 14.

a Center for Personalized Diagnostics, Biodesign Institute , Arizona State University , Tempe , AZ , USA.

Introduction: The recent development of checkpoint blockade immunotherapy for cancer has led to impressive clinical results across multiple tumor types. There is mounting evidence that immune recognition of tumor derived MHC class I (MHC-I) restricted epitopes bearing cancer specific mutations and alterations is a crucial mechanism in successfully triggering immune-mediated tumor rejection. Therapeutic targeting of these cancer specific epitopes (neoepitopes) is emerging as a promising opportunity for the generation of personalized cancer vaccines and adoptive T cell therapies. Read More

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https://www.tandfonline.com/doi/full/10.1080/14789450.2018.1
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http://dx.doi.org/10.1080/14789450.2018.1545578DOI Listing
December 2018
19 Reads

Advances and challenges in understanding the role of the lipid raft proteome in human health.

Expert Rev Proteomics 2018 12 13;15(12):1053-1063. Epub 2018 Nov 13.

a Precision & Systems Biomedicine Laboratory , QIMR Berghofer Medical Research Institute , Brisbane , Australia.

Introduction: Phase separation as a biophysical principle drives the formation of liquid-ordered 'lipid raft' membrane microdomains in cellular membranes, including organelles. Given the critical role of cellular membranes in both compartmentalization and signaling, clarifying the roles of membrane microdomains and their mutual regulation of/by membrane proteins is important in understanding the fundamentals of biology, and has implications for health. Areas covered: This article will consider the evidence for lateral membrane phase separation in model membranes and organellar membranes, critically evaluate the current methods for lipid raft proteomics and discuss the biomedical implications of lipid rafts. Read More

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December 2018
18 Reads

Could a blood test for PTSD and depression be on the horizon?

Expert Rev Proteomics 2018 12 20;15(12):983-1006. Epub 2018 Nov 20.

a The Psychiatric Institute, Department of Psychiatry , University of Illinois at Chicago , Chicago , IL , USA.

Introduction: Depression and posttraumatic stress disorder (PTSD) are two complex and debilitating psychiatric disorders that result in poor life and destructive behaviors against self and others. Currently, diagnosis is based on subjective rather than objective determinations leading to misdiagnose and ineffective treatments. Advances in novel neurobiological methods have allowed assessment of promising biomarkers to diagnose depression and PTSD, which offers a new means of appropriately treating patients. Read More

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December 2018
14 Reads

Clinical application of quantitative glycomics.

Expert Rev Proteomics 2018 12 14;15(12):1007-1031. Epub 2018 Nov 14.

a Department of Chemistry and Biochemistry , Texas Tech University , Lubbock , TX , USA.

Introduction: Aberrant glycosylation has been associated with many diseases. Decades of research activities have reported many reliable glycan biomarkers of different diseases which enable effective disease diagnostics and prognostics. However, none of the glycan markers have been approved for clinical diagnosis. Read More

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December 2018
1 Read

Nanoproteomics comes of age.

Expert Rev Proteomics 2018 11 30;15(11):865-871. Epub 2018 Oct 30.

b Biological Sciences Division , Pacific Northwest National Laboratory , Richland , WA , USA.

Introduction: Nanoproteomics, which is defined as quantitative proteome profiling of small populations of cells (<5000 cells), can reveal critical information related to rare cell populations, hard-to-obtain clinical specimens, and the cellular heterogeneity of pathological tissues. Areas covered: We present a brief review of the recent technological advances in nanoproteomics. These advances include new technologies or approaches covering major areas of proteomics workflow ranging from sample isolation, sample processing, high-resolution separations, to MS instrumentation. Read More

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6415674PMC
November 2018
4 Reads

Blood and sputum protein biomarkers for chronic obstructive pulmonary disease (COPD).

Expert Rev Proteomics 2018 11 29;15(11):923-935. Epub 2018 Oct 29.

a Centre for Heart and Lung Innovation , St. Paul's Hospital & University of British Columbia , Vancouver , Canada.

Introduction: Chronic obstructive pulmonary disease (COPD) is a heterogeneous set of disorders, characterized by airflow limitation, and reduced lung function. Despite increasing knowledge regarding its pathophysiology, there has been limited advancement in therapeutics and the current treatment strategy is symptom management and prevention of exacerbations. Areas covered: Biomarkers represent important tools for the implementation of precision medicine. Read More

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November 2018
24 Reads

Surface markers of human embryonic stem cells: a meta analysis of membrane proteomics reports.

Expert Rev Proteomics 2018 11 29;15(11):911-922. Epub 2018 Oct 29.

a Department of Molecular Systems Biology at Cell Science Research Center , Royan Institute for Stem Cell Biology and Technology, ACECR , Tehran , Iran.

Introduction: Human embryonic stem cells (hESCs) have unique biological features and attributes that make them attractive in various areas of biomedical research. With heightened applications, there is an ever increasing need for advancement of proteome analysis. Membrane proteins are one of the most important subset of hESC proteins as they can be used as surface markers. Read More

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November 2018
19 Reads

Metalloproteinases in disease: identification of biomarkers of tissue damage through proteomics.

Expert Rev Proteomics 2018 12 31;15(12):967-982. Epub 2018 Oct 31.

b Instituto Clodomiro Picado, Facultad de Microbiología , Universidad de Costa Rica , San José , Costa Rica.

Introduction: Metalloproteinases play key roles in health and disease, by generating novel proteoforms with variable structure and function. Areas covered: This review focuses on the role of endogenous [a Disintegrin and Metalloproteinase (ADAMs), ADAMs with thrombospondin motifs (ADAMTS), and matrix metalloproteinases (MMPs)] and exogenous metalloproteinases in various disease conditions, and describes the application of mass spectrometry-based proteomics to detect qualitative and quantitative changes in protein profiles in tissues and body fluids in disease. Emphasis is placed on the proteomic analysis of exudates collected from affected tissues, including methods that enrich newly generated protein fragments derived from proteolysis in cells, stroma, or extracellular matrix. Read More

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December 2018
9 Reads

Proteomics analysis to compare the venom composition between Naja naja and Naja kaouthia from the same geographical location of eastern India: Correlation with pathophysiology of envenomation and immunological cross-reactivity towards commercial polyantivenom.

Expert Rev Proteomics 2018 11 31;15(11):949-961. Epub 2018 Oct 31.

a Microbial Biotechnology and Protein Research Laboratory, Department of Molecular Biology and Biotechnology , Tezpur University , Tezpur , India.

Background: Cobra bite is frequently reported across the Indian subcontinent and is associated with a high rate of death and morbidity. In eastern India (EI) Naja naja and Naja kaouthia are reported to be the two most abundant species of cobra.

Research Design And Methods: The venom proteome composition of N. Read More

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November 2018
15 Reads

The role of hydrophobic /hydrophilic balance in the activity of structurally flexible vs. rigid cytolytic polypeptides and analogs developed on their basis.

Expert Rev Proteomics 2018 11 26;15(11):873-886. Epub 2018 Oct 26.

a Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry , Russian Academy of Sciences , Moscow , Russia.

Introduction: Being important representatives of various proteomes, membrane-active cationic peptides (CPs) are attractive objects as lead compounds in the design of new antibacterial, anticancer, antifungal, and antiviral molecules. Numerous CPs are found in insect and snake venoms, where many of them reveal cytolytic properties. Due to advances in omics technologies, the number of such peptides is growing dramatically. Read More

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November 2018
11 Reads

Understanding extracellular vesicle diversity - current status.

Expert Rev Proteomics 2018 11 23;15(11):887-910. Epub 2018 Oct 23.

a Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science , La Trobe University , Melbourne , Australia.

Introduction: Extracellular vesicles (EVs) represent an important mode of intercellular communication. There is now a growing awareness that predominant EV subtypes; exosomes from endosomal origin, and shed microvesicles from plasma membrane budding, can be further stratified into distinct subtypes, however specific approaches in their isolation and markers that allow them to be discriminated are lacking. Areas covered: Knowledge about these distinct EV subpopulations is important including the regulation of composition, release, targeting/localization, uptake, and function. Read More

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November 2018
25 Reads

The receptor for advanced glycation end products (RAGE) and DIAPH1: unique mechanisms and healing the wounded vascular system.

Expert Rev Proteomics 2018 Oct 16. Epub 2018 Oct 16.

a Diabetes Research Program, Division of Endocrinology, Diabetes and Metabolism, Department of Medicine , New York University School of Medicine , New York , NY.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6467738PMC
October 2018
8 Reads

Phosphoprotein-based drug target activation mapping for precision oncology: a view to the future.

Expert Rev Proteomics 2018 11 12;15(11):851-853. Epub 2018 Oct 12.

a Center for Applied Proteomics and Molecular Medicine, School of Systems Biology , George Mason University , Manassas , Virginia , USA.

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November 2018
9 Reads

Update on: proteome analysis in thyroid pathology - part II: overview of technical and clinical enhancement of proteomic investigation of the thyroid lesions.

Expert Rev Proteomics 2018 11 16;15(11):937-948. Epub 2018 Oct 16.

b Department of Medicine and Surgery , University of Milano-Bicocca, Section of Pathology , Monza , Italy.

Introduction: An accurate diagnostic classification of thyroid lesions remains an important clinical aspect that needs to be addressed in order to avoid 'diagnostic' thyroidectomies. Among the several 'omics' techniques, proteomics is playing a pivotal role in the search for diagnostic markers. In recent years, different approaches have been used, taking advantage of the technical improvements related to mass spectrometry that have occurred. Read More

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November 2018
7 Reads