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Proteomics and blood biomarkers

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https://www.readbyqxmd.com/read/28821634/lipidomic-and-proteomic-analysis-of-exosomes-from-mouse-cortical-collecting-duct-cells
#1
Viet D Dang, Kishore Kumar Jella, Ragy R T Ragheb, Nancy D Denslow, Abdel A Alli
Exosomes are endosome-derived nanovesicles that are involved in cellular communication and signaling. Exosomes are produced by epithelial cells and are found in biologic fluids including blood and urine. The packaged material within exosomes includes proteins and lipids, but the molecular comparison within exosome subtypes is largely unknown. The purpose of this study was to investigate differences between exosomes derived from the apical plasma membrane and basolateral plasma membrane of polarized murine cortical collecting duct principal cells...
August 16, 2017: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/28816095/new-astroglial-injury-defined-biomarkers-for-neurotrauma-assessment
#2
Julia Halford, Sean Shen, Kyohei Itamura, Jaclynn Levine, Albert C Chong, Gregg Czerwieniec, Thomas C Glenn, David A Hovda, Paul Vespa, Ross Bullock, W Dalton Dietrich, Stefania Mondello, Joseph A Loo, Ina-Beate Wanner
Traumatic brain injury (TBI) is an expanding public health epidemic with pathophysiology that is difficult to diagnose and thus treat. TBI biomarkers should assess patients across severities and reveal pathophysiology, but currently, their kinetics and specificity are unclear. No single ideal TBI biomarker exists. We identified new candidates from a TBI CSF proteome by selecting trauma-released, astrocyte-enriched proteins including aldolase C (ALDOC), its 38kD breakdown product (BDP), brain lipid binding protein (BLBP), astrocytic phosphoprotein (PEA15), glutamine synthetase (GS) and new 18-25kD-GFAP-BDPs...
January 1, 2017: Journal of Cerebral Blood Flow and Metabolism
https://www.readbyqxmd.com/read/28808996/preparation-and-immunoaffinity-depletion-of-fresh-frozen-tissue-homogenates-for-mass-spectrometry-based-proteomics-in-the-context-of-drug-target-biomarker-discovery
#3
DaRue A Prieto, King C Chan, Donald J Johann, Xiaoying Ye, Gordon Whitely, Josip Blonder
The discovery of novel drug targets and biomarkers via mass spectrometry (MS)-based proteomic analysis of clinical specimens has proven to be challenging. The wide dynamic range of protein concentration in clinical specimens and the high background/noise originating from highly abundant proteins in tissue homogenates and serum/plasma encompass two major analytical obstacles. Immunoaffinity depletion of highly abundant blood-derived proteins from serum/plasma is a well-established approach adopted by numerous researchers; however, the utilization of this technique for immunodepletion of tissue homogenates obtained from fresh frozen clinical specimens is lacking...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28806220/association-of-gender-with-outcome-and-host-response-in-critically-ill-sepsis-patients
#4
Lonneke A van Vught, Brendon P Scicluna, Maryse A Wiewel, Arie J Hoogendijk, Peter M C Klein Klouwenberg, David S Y Ong, Olaf L Cremer, Janneke Horn, Marek Franitza, Mohammad R Toliat, Peter Nürnberg, Marc M J Bonten, Marcus J Schultz, Tom van der Poll
OBJECTIVE: To determine the association of gender with the presentation, outcome, and host response in critically ill patients with sepsis. DESIGN AND SETTING: A prospective observational cohort study in the ICU of two tertiary hospitals between January 2011 and January 2014. PATIENTS: All consecutive critically ill patients admitted with sepsis, involving 1,815 admissions (1,533 patients). INTERVENTIONS: The host response was evaluated on ICU admission by measuring 19 plasma biomarkers reflecting organ systems implicated in sepsis pathogenesis (1,205 admissions) and by applying genome-wide blood gene expression profiling (582 admissions)...
August 11, 2017: Critical Care Medicine
https://www.readbyqxmd.com/read/28799854/proteomic-studies-in-the-discovery-of-cerebrospinal-fluid-biomarkers-for-amyotrophic-lateral-sclerosis
#5
Peggy Barschke, Patrick Oeckl, Petra Steinacker, Albert Ludolph, Markus Otto
Amyotrophic lateral sclerosis (ALS) is a progressive degenerative motor neuron disease, which usually leads to death within a few years. The diagnosis is mainly based on clinical symptoms and there is a need for ALS-specific biomarkers to make an early and precise diagnosis, for development of disease-modifying drugs and to gain new insights into pathophysiology. Areas covered: In the present review, we summarize studies using mass spectrometric (MS) approaches to identify protein alterations in the cerebrospinal fluid (CSF) of ALS patients...
August 14, 2017: Expert Review of Proteomics
https://www.readbyqxmd.com/read/28777303/novel-biomarkers-in-the-diagnosis-of-chronic-kidney-disease-and-the-prediction-of-its-outcome
#6
REVIEW
Jacek Rysz, Anna Gluba-Brzózka, Beata Franczyk, Zbigniew Jabłonowski, Aleksandra Ciałkowska-Rysz
In its early stages, symptoms of chronic kidney disease (CKD) are usually not apparent. Significant reduction of the kidney function is the first obvious sign of disease. If diagnosed early (stages 1 to 3), the progression of CKD can be altered and complications reduced. In stages 4 and 5 extensive kidney damage is observed, which usually results in end-stage renal failure. Currently, the diagnosis of CKD is made usually on the levels of blood urea and serum creatinine (sCr), however, sCr has been shown to be lacking high predictive value...
August 4, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28775000/bpi-fold-containing-family-a-member-2-parotid-secretory-protein-is-an-early-biomarker-of-aki
#7
Satya K Kota, Elizabeth Pernicone, David E Leaf, Isaac E Stillman, Sushrut S Waikar, Savithri Balasubramanian Kota
AKI is a major cause of morbidity and mortality and an important contributor to the development and progression of CKD. Molecular biomarkers that improve the detection and prognostication of AKI are therefore required. We assessed the utility as such of BPI fold-containing family A member 2 (BPIFA2), also known as parotid secretory protein, which we identified via a multiplex quantitative proteomics screen of acutely injured murine kidneys. In physiologic conditions, BPIFA2 is expressed specifically in the parotid glands and is abundant in salivary secretions...
August 3, 2017: Journal of the American Society of Nephrology: JASN
https://www.readbyqxmd.com/read/28772032/differentiating-heart-failure-phenotypes-using-sex-specific-transcriptomic-and-proteomic-biomarker-panels
#8
Mustafa Toma, George J Mak, Virginia Chen, Zsuzsanna Hollander, Casey P Shannon, Karen K Y Lam, Raymond T Ng, Scott J Tebbutt, Janet E Wilson-McManus, Andrew Ignaszewski, Todd Anderson, Jason R B Dyck, Jonathan Howlett, Justin Ezekowitz, Bruce M McManus, Gavin Y Oudit
AIMS: Heart failure with preserved ejection fraction (HFpEF) accounts for 30-50% of patients with heart failure (HF). A major obstacle in HF management is the difficulty in differentiating between HFpEF and heart failure with reduced ejection fraction (HFrEF) using conventional clinical and laboratory investigations. The aim of this study is to develop robust transcriptomic and proteomic biomarker signatures that can differentiate HFpEF from HFrEF. METHODS AND RESULTS: A total of 210 HF patients were recruited in participating institutions from the Alberta HEART study...
August 2017: ESC Heart Failure
https://www.readbyqxmd.com/read/28762680/-update-on-proteomic-use-in-hemodialysis
#9
REVIEW
Mario Bonomini, Vittorio Sirolli, Silvia Baroni, Andrea Urbani
Application of proteomics has become one of the leading experimental disciplines for increased understanding of the key role played by proteins and protein-protein interactions in all aspects of cell function. There is an increasing use of proteomic technologies for investigation into renal replacement therapy such as hemodialysis. In the last 10 years, the application of shotgun bottom-up liquid chromatography-mass spectrometry/mass spectrometry approaches has been successfully applied to research in uremic toxicity, with the discovery of novel uremic toxins and the potential to delineate a precise molecular approach to defining the biochemical nature of uremia...
August 1, 2017: Giornale Italiano di Nefrologia: Organo Ufficiale Della Società Italiana di Nefrologia
https://www.readbyqxmd.com/read/28750635/proteomic-analysis-of-human-follicular-fluid-associated-with-successful-in-vitro-fertilization
#10
Xiaofang Shen, Xin Liu, Peng Zhu, Yuhua Zhang, Jiahui Wang, Yanwei Wang, Wenting Wang, Juan Liu, Ning Li, Fujun Liu
BACKGROUND: Human follicular fluid (HFF) provides a key environment for follicle development and oocyte maturation, and contributes to oocyte quality and in vitro fertilization (IVF) outcome. METHODS: To better understand folliculogenesis in the ovary, a proteomic strategy based on dual reverse phase high performance liquid chromatography (RP-HPLC) coupled to matrix-assisted laser desorption/ionization time-of-flight tandem mass spectrometry (LC-MALDI TOF/TOF MS) was used to investigate the protein profile of HFF from women undergoing successful IVF...
July 27, 2017: Reproductive Biology and Endocrinology: RB&E
https://www.readbyqxmd.com/read/28749931/quantitative-multiplexed-workflow-for-deep-analysis-of-human-blood-plasma-and-biomarker-discovery-by-mass-spectrometry
#11
Hasmik Keshishian, Michael W Burgess, Harrison Specht, Luke Wallace, Karl R Clauser, Michael A Gillette, Steven A Carr
Proteomic characterization of blood plasma is of central importance to clinical proteomics and particularly to biomarker discovery studies. The vast dynamic range and high complexity of the plasma proteome have, however, proven to be serious challenges and have often led to unacceptable tradeoffs between depth of coverage and sample throughput. We present an optimized sample-processing pipeline for analysis of the human plasma proteome that provides greatly increased depth of detection, improved quantitative precision and much higher sample analysis throughput as compared with prior methods...
August 2017: Nature Protocols
https://www.readbyqxmd.com/read/28736317/next-generation-proteomics-and-its-application-to-clinical-breast-cancer-research
#12
REVIEW
Mariya Mardamshina, Tamar Geiger
Proteomics technology aims to map the protein landscapes of biological samples, and it can be applied to a variety of samples, including cells, tissues, and body fluids. Because the proteins are the main functional molecules in the cells, their levels reflect much more accurately the cellular phenotype and the regulatory processes within them than gene levels, mutations, and even mRNA levels. With the advancement in the technology, it is possible now to obtain comprehensive views of the biological systems and to study large patient cohorts in a streamlined manner...
July 20, 2017: American Journal of Pathology
https://www.readbyqxmd.com/read/28727760/detection-of-titin-fragments-in-urine-in-response-to-exercise-induced-muscle-damage
#13
Kazue Kanda, Jun Sakuma, Takayuki Akimoto, Yasuo Kawakami, Katsuhiko Suzuki
Many studies have attempted to determine the associations between blood biomarkers and exercise-induced muscle damage. However, poor correlations between the changes in biomarker levels and the magnitude of muscle symptoms have been reported. Recent advances in proteomic tools offer a strategy for the comprehensive analysis of protein expression, which can be used to identify biomarkers. Here, we used a proteomic analysis to identify urinary proteins that appear in response to a calf-raise exercise, including repetitive eccentric muscle contractions, and found that a titin (also known as connectin) N-terminal fragment molecule appears in the urine after eccentric exercise...
2017: PloS One
https://www.readbyqxmd.com/read/28718403/adam-metalloprotease-released-cancer-biomarkers
#14
REVIEW
Peter Herrlich, Andreas Herrlich
Identification of early cancer, detection of progression, and monitoring of therapeutic success remain urgent issues in clinical medicine, particularly given the increasing cancer incidence in our aging populations. New methodologies have provided enormous progress over the past decades by defining the genetic and proteomic composition of cancers, yielding putative cancer biomarkers detectable in blood or other body fluids less invasively and more cheaply than using currently available screening techniques that often involve biopsies or surgery...
July 2017: Trends in Cancer
https://www.readbyqxmd.com/read/28717962/comparative-proteome-analysis-for-identification-of-differentially-abundant-proteins-in-sids
#15
Noha El-Kashef, Iva Gomes, Katja Mercer-Chalmers-Bender, Peter M Schneider, Markus A Rothschild, Martin Juebner
Sudden infant death syndrome (SIDS) remains one of the most common causes of post-neonatal infant mortality in developed countries. Its pathogenesis is still poorly understood. The goal of the present study was to characterize changes in the proteome of SIDS compared to age-matched controls in heart and medulla tissues as well as in blood samples using two complementary quantitative proteomic techniques: 2D-DIGE and iTRAQ aiming to provide new insights into the mechanism of SIDS and to find diagnostic protein patterns...
July 17, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28709695/peripheral-biomarkers-of-major-depression-and-antidepressant-treatment-response-current-knowledge-and-future-outlooks
#16
REVIEW
Bharathi S Gadad, Manish K Jha, Andrew Czysz, Jennifer L Furman, Taryn L Mayes, Michael P Emslie, Madhukar H Trivedi
BACKGROUND: In recent years, we have accomplished a deeper understanding about the pathophysiology of major depressive disorder (MDD). Nevertheless, this improved comprehension has not translated to improved treatment outcome, as identification of specific biologic markers of disease may still be crucial to facilitate a more rapid, successful treatment. Ongoing research explores the importance of screening biomarkers using neuroimaging, neurophysiology, genomics, proteomics, and metabolomics measures...
July 5, 2017: Journal of Affective Disorders
https://www.readbyqxmd.com/read/28706912/diagnosis-and-prognosis-review-of-biomarkers-for-mesothelioma
#17
REVIEW
Huan H Sun, Allen Vaynblat, Harvey I Pass
Malignant pleural mesothelioma (MPM) is an aggressive disease arising in pleural cell lining and is associated with asbestos exposure. Today, there is a rising incidence of MPM reaching 3,000 annual cases nationally, primarily from the large population occupationally exposed to asbestos between 1940 and 1980. With a prolonged latency period, presenting clinically 10 to 40 years after exposure, MPM is often diagnosed in late stages and presents median survival time of less than 12 months. There is a serious need for improvement in prognostic and diagnostic tools for MPM...
June 2017: Annals of Translational Medicine
https://www.readbyqxmd.com/read/28687758/directional-exosome-proteomes-reflect-polarity-specific-functions-in-retinal-pigmented-epithelium-monolayers
#18
Mikael Klingeborn, W Michael Dismuke, Nikolai P Skiba, Una Kelly, W Daniel Stamer, Catherine Bowes Rickman
The retinal pigmented epithelium (RPE) forms the outer blood-retinal barrier in the eye and its polarity is responsible for directional secretion and uptake of proteins, lipoprotein particles and extracellular vesicles (EVs). Such a secretional division dictates directed interactions between the systemic circulation (basolateral) and the retina (apical). Our goal is to define the polarized proteomes and physical characteristics of EVs released from the RPE. Primary cultures of porcine RPE cells were differentiated into polarized RPE monolayers on permeable supports...
July 7, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28674903/mass-spectrometry-based-serum-proteomics-for-biomarker-discovery-and-validation
#19
Santosh D Bhosale, Robert Moulder, Petri Kouvonen, Riitta Lahesmaa, David R Goodlett
Blood protein measurements are used frequently in the clinic in the assessment of patient health. Nevertheless, there remains the need for new biomarkers with better diagnostic specificities. With the advent of improved technology for bioanalysis and the growth of biobanks including collections from specific disease risk cohorts, the plasma proteome has remained a target of proteomics research toward the characterization of disease-related biomarkers. The following protocol presents a workflow for serum/plasma proteomics including details of sample preparation both with and without immunoaffinity depletion of the most abundant plasma proteins and methodology for selected reaction monitoring mass spectrometry validation...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28674902/a-highly-automated-shotgun-proteomic-workflow-clinical-scale-and-robustness-for-biomarker-discovery-in-blood
#20
Loïc Dayon, Antonio Núñez Galindo, Ornella Cominetti, John Corthésy, Martin Kussmann
With recent technological developments, protein biomarker discoveries directly from blood have regained interest due to elevated feasibility. Mass spectrometry (MS)-based proteomics can now characterize human plasma proteomes to a greater extent than has ever been possible before. Such deep proteome coverage comes, however, with important limitations in terms of analysis time which is a critical factor in the case of clinical studies. As a consequence, compromises still need to be made to balance the proteome coverage with realistic analysis time frame in clinical research...
2017: Methods in Molecular Biology
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