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Proteomics and blood biomarkers

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https://www.readbyqxmd.com/read/28510335/proteoforms-in-peripheral-blood-mononuclear-cells-as-novel-rejection-biomarkers-in-liver-transplant-recipients
#1
T K Toby, M Abecassis, K Kim, P M Thomas, R T Fellers, R D LeDuc, N L Kelleher, J Demetris, J Levitsky
Biomarker profiles of acute rejection in liver transplant recipients could enhance the diagnosis and management of recipients. Our aim was to identify diagnostic proteoform signatures of acute rejection in circulating immune cells, using an emergent "top down" proteomics methodology. We prepared differentially processed and cryopreserved cell lysates from 26 non-viral liver transplant recipients by molecular weight-based fractionation and analyzed them by mass spectrometry of whole proteins in three steps: 1) Nanocapillary liquid chromatography coupled with high-resolution tandem mass spectrometry; 2) database searching to identify and characterize intact proteoforms; 3) data processing through a hierarchical linear model matching the study design to quantify proteoform fold changes in patients with rejection vs...
May 16, 2017: American Journal of Transplantation
https://www.readbyqxmd.com/read/28508357/biofluid-proteomics-and-biomarkers-in-traumatic-brain-injury
#2
Safa Azar, Anwarul Hasan, Richard Younes, Farah Najdi, Lama Baki, Hussein Ghazale, Firas H Kobeissy, Kazem Zibara, Stefania Mondello
Traumatic brain injury (TBI) is an injury to the brain caused by an external mechanical force, affecting millions of people worldwide. The disease course and prognosis are often unpredictable, and it can be challenging to determine an early diagnosis in case of mild injury as well as to accurately phenotype the injury. There is currently no cure for TBI-drugs having failed repeatedly in clinical trials-but an intense effort has been put to identify effective neuroprotective treatment. The detection of novel biomarkers, to understand more of the disease mechanism, facilitates early diagnosis, predicts disease progression, and develops molecularly targeted therapies that would be of high clinical interest...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28501389/differential-proteome-profile-in-ischemic-heart-disease-prognostic-value-in-chronic-angina-versus-myocardial-infarction-a-proof-of-concept
#3
Francesca Scebba, Massimo Papale, Silvia Rocchiccioli, Nadia Ucciferri, Federico Bigazzi, Tiziana Sampietro, Clara Carpeggiani, Antonio L'Abbate, Flavio Coceani, Debora Angeloni
The initial clinical manifestation of ischemic heart disease (IHD) i.e. unheralded myocardial infarction (MI) versus chronic angina pectoris (AP) is statistically associated with adverse or mild disease progression respectively in the long-term follow-up. Here, we subjected AP and MI patients to blood proteomic analysis by Surface-Enhanced Laser Desorption/Ionization Time-of-Flight Mass Spectrometry (SELDI-TOF-MS) in order to investigate putative new prognostic biomarkers of IHD manifestation. We found several differentially expressed peaks but four of them (4176, 4475, 14,158m/z and 8922m/z for AP and MI, respectively) were most reliable...
May 10, 2017: Clinica Chimica Acta; International Journal of Clinical Chemistry
https://www.readbyqxmd.com/read/28501198/introducing-plasma-serum-glycodepletion-for-the-targeted-proteomics-analysis-of-cytolysis-biomarkers
#4
Pauline Maes, Sandrine Donadio-Andréi, Mathilde Louwagie, Yohann Couté, Guillaume Picard, Claire Lacoste, Christophe Bruley, Jérôme Garin, Philippe Ichai, Jamila Faivre, Michel Jaquinod, Virginie Brun
A major class of clinical biomarkers is constituted of intracellular proteins which are leaking into the blood following ischemia, exposure to toxic xenobiotics or mechanical aggression. Their ectopic presence in plasma/serum is an indicator of tissue damage and raises a warning signal. These proteins, referred to as cytolysis biomarkers, are generally of cytoplasmic origin and as such, are devoid of glycosylation. In contrast, most plasma/serum proteins originate from the hepatic secretory pathway and are heavily glycosylated (at the exception of albumin)...
August 1, 2017: Talanta
https://www.readbyqxmd.com/read/28500821/serum-carbonic-anhydrase-1-is-a-biomarker-for-diagnosis-of-human-schistosoma-mansoni-infection
#5
Manal Ibrahim Kardoush, Brian J Ward, Momar Ndao
AbstractSchistosoma mansoni is a major public health threat in many parts of the world. The current diagnostic tests for schistosomiasis are suboptimal, particularly early in infection, when the parasite burden is low and with reinfection after treatment. We sought to identify novel biomarkers of active infection by studying serum proteins in a mouse model of schistosomiasis followed by confirmation in chronically infected patients. Acute (6 weeks) and chronic (12 weeks) sera from S. mansoni-infected C57Bl/6 mice as well as sera from chronically infected patients were assessed using two proteomic platforms: surface-enhanced, laser desorption and ionization, time-of-flight mass spectrometry and Velos Orbitrap mass spectrometry...
April 2017: American Journal of Tropical Medicine and Hygiene
https://www.readbyqxmd.com/read/28490445/serological-epithelial-component-proteins-identify-intestinal-complications-in-crohn-s-disease
#6
Yunki Y Yau, Rupert Wl Leong, Aviv Pudipeddi, Diane Redmond, Valerie C Wasinger
Crohns Disease (CD) is a relapsing inflammation of the gastrointestinal tract that affects a young working age population and is increasing in developing countries. Half of all sufferers will experience stricturing or fistulizing intestinal complications that require extensive surgical interventions and neither genes nor clinical risk factors can predict this debilitating natural history. We applied discovery and verification phase studies as part of an NCI-FDA modelled biomarker pipeline to identify differences in the low-mass (<25kDa) blood-serum proteome between CD behavioural phenotypes...
May 10, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/28475627/effects-on-pig-immunophysiology-pbmc-proteome-and-brain-neurotransmitters-caused-by-group-mixing-stress-and-human-animal-relationship
#7
Daniel Valent, Laura Arroyo, Raquel Peña, Kuai Yu, Ricard Carreras, Eva Mainau, Antonio Velarde, Anna Bassols
Peripheral blood mononuclear cells (PBMC) are an interesting sample for searching for biomarkers with proteomic techniques because they are easy to obtain and do not contain highly abundant, potentially masking proteins. Two groups of pigs (n = 56) were subjected to mixing under farm conditions and afterwards subjected to different management treatments: negative handling (NH) and positive handling (PH). Serum and PBMC samples were collected at the beginning of the experiment one week after mixing (t0) and after two months of different handling (t2)...
2017: PloS One
https://www.readbyqxmd.com/read/28472996/a-survey-of-proteomic-biomarkers-for-heterotopic-ossification-in-blood-serum
#8
Laura E Edsberg, Erin L Crowgey, Patrick M Osborn, Jennifer T Wyffels
BACKGROUND: Heterotopic ossification (HO) is a significant problem for wounded warriors surviving high-energy blast injuries; however, currently, there is no biomarker panel capable of globally characterizing, diagnosing, and monitoring HO progression. The aim of this study was to identify biomarkers for HO using proteomic techniques and blood serum. METHODS: Isobaric tags for relative and absolute quantitation (iTRAQ) was used to generate a semi-quantitative global proteomics survey of serum from patients with and without heterotopic ossification...
May 4, 2017: Journal of Orthopaedic Surgery and Research
https://www.readbyqxmd.com/read/28469965/eight-plex-itraq-labeling-and-quantitative-proteomic-analysis-for-human-bladder-cancer
#9
Qimin Zhang, Shengsong Huang, Huarong Luo, Xin Zhao, Gang Wu, Denglong Wu
Bladder cancer is one of the most prevalent cancers worldwide, and increasing research has focused on new technologies for early detection of bladder cancer. For example, proteomic techniques for biomarker discovery have been implemented for the detection and analysis of protein changes in the tissues, blood, and urine from bladder cancer patients. In this present study, we evaluated the effectiveness of the eight-plex iTRAQ labeling and quantitative proteomic approaches for differentially analyzing proteins found in normal and bladder cancer tissues from individual patients...
2017: American Journal of Cancer Research
https://www.readbyqxmd.com/read/28452194/proteomic-profiling-identifies-novel-circulating-markers-associated-with-bronchiectasis-in-cystic-fibrosis
#10
Emily M DeBoer, Miranda Kroehl, Brandie D Wagner, Frank Accurso, J Kirk Harris, David A Lynch, Scott D Sagel, Robin R Deterding
PURPOSE: Evaluate bronchiectasis change over one year in children with cystic fibrosis (CF) and find blood proteins associated with bronchiectasis. EXPERIMENTAL DESIGN: Pilot study of CF children who had chest computed tomography (CT) scans and blood collected during times of clinical stability. Blood plasma was analyzed for 1129 proteins using SOMAmer(®) , the SOMAscan proteomics platform. Bronchiectasis was measured on two CT scans collected 1 year apart. Spearman's rank estimated the correlations between outcomes...
April 28, 2017: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/28437237/proteomics-in-hypothermia-as-adjunctive-therapy-in-patients-with-st-segment-elevation-myocardial-infarction-a-chill-mi-substudy
#11
Moman A Mohammad, Marco Noc, Irene Lang, Michael Holzer, Peter Clemmensen, Ulf Jensen, Bernhard Metzler, David Erlinge
Cardiovascular and inflammatory biomarkers in therapeutic hypothermia have been studied in cardiac arrest, but data on patients with ST-segment elevation myocardial infarction (STEMI) treated with therapeutic hypothermia are currently unavailable. A multiplex proximity extension assay allowed us to measure 157 cardiovascular disease (CVD) and inflammatory disease-related biomarkers in patients from the international, multicenter, and randomized trial; CHILL-myocardial infarction (MI) and to explore the associations of cardiovascular and inflammatory biomarkers...
March 2, 2017: Therapeutic Hypothermia and Temperature Management
https://www.readbyqxmd.com/read/28428745/decreased-levels-of-foldase-and-chaperone-proteins-are-associated-with-an-early-onset-amyotrophic-lateral-sclerosis
#12
Melania Filareti, Silvia Luotti, Laura Pasetto, Mauro Pignataro, Katia Paolella, Paolo Messina, Elisabetta Pupillo, Massimiliano Filosto, Christian Lunetta, Jessica Mandrioli, Giuseppe Fuda, Andrea Calvo, Adriano Chiò, Massimo Corbo, Caterina Bendotti, Ettore Beghi, Valentina Bonetto
Amyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disease characterized by a progressive upper and lower motor neuron degeneration. One of the peculiar clinical characteristics of ALS is the wide distribution in age of onset, which is probably caused by different combinations of intrinsic and exogenous factors. We investigated whether these modifying factors are converging into common pathogenic pathways leading either to an early or a late disease onset. This would imply the identification of phenotypic biomarkers, that can distinguish the two populations of ALS patients, and of relevant pathways to consider in a therapeutic intervention...
2017: Frontiers in Molecular Neuroscience
https://www.readbyqxmd.com/read/28427537/metabolomics-nutrition-and-potential-biomarkers-of-food-quality-intake-and-health-status
#13
Jean-Louis Sébédio
Diet, dietary patterns, and other environmental factors such as exposure to toxins are playing an important role in the prevention/development of many diseases, like obesity, type 2 diabetes, and consequently on the health status of individuals. A major challenge nowadays is to identify novel biomarkers to detect as early as possible metabolic dysfunction and to predict evolution of health status in order to refine nutritional advices to specific population groups. Omics technologies such as genomics, transcriptomics, proteomics, and metabolomics coupled with statistical and bioinformatics tools have already shown great potential in this research field even if so far only few biomarkers have been validated...
2017: Advances in Food and Nutrition Research
https://www.readbyqxmd.com/read/28425473/2d-dige-as-a-strategy-to-identify-serum-biomarkers-in-mexican-patients-with-type-2-diabetes-with-different-body-mass-index
#14
Erik E Gómez-Cardona, Eric E Hernández-Domínguez, Aída J Velarde-Salcedo, Alberto-Barrera- Pacheco, Agustín Diaz-Gois, Antonio De León-Rodríguez, Ana P Barba de la Rosa
Obesity and type 2 diabetes(T2D) are the most prevalent and serious metabolic diseases affecting people worldwide. However racial and ethnic disparities seems to be a risk factor for their development. Mexico has been named as one of the largest populations with the highest prevalence of diabetes and obesity. The aim of this study was to identify novel T2D-associated proteins in Mexican patients. Blood samples were collected from 62 Mexican patients with T2D and they were grouped according to their body mass index(BMI)...
April 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28424047/deciphering-mechanisms-underlying-the-genetic-variation-of-general-production-and-liver-quality-traits-in-the-overfed-mule-duck-by-pqtl-analyses
#15
Yoannah François, Alain Vignal, Caroline Molette, Nathalie Marty-Gasset, Stéphane Davail, Laurence Liaubet, Christel Marie-Etancelin
BACKGROUND: The aim of this study was to analyse the mechanisms that underlie phenotypic quantitative trait loci (QTL) in overfed mule ducks by identifying co-localized proteomic QTL (pQTL). The QTL design consisted of three families of common ducks that were progeny-tested by using 294 male mule ducks. This population of common ducks was genotyped using a genetic map that included 334 genetic markers located across 28 APL chromosomes (APL for Anas platyrhynchos). Mule ducks were phenotyped for 49 traits related to growth, metabolism, overfeeding ability and meat and fatty liver quality, and 326 soluble fatty liver proteins were quantified...
April 19, 2017: Genetics, Selection, Evolution: GSE
https://www.readbyqxmd.com/read/28412848/proteomic-profile-of-serum-of-pregnant-women-carring-a-fetus-with-down-syndrome-using-nano-uplc-q-tof-ms-ms-technology
#16
Graciela Arelí López-Uriarte, Carlos Horacio Burciaga Flores, Víctor Manuel Torres de la Cruz, María Magdalena Medina Aguado, Viviana Maricela Gómez Puente, Liliana Nayeli Romero Gutiérrez, Laura Elia Martínez de Villarreal
INTRODUCTION: Prenatal diagnosis of Down syndrome (DS) is based on the calculated risk of maternal age, biochemical and ultrasonographic markers and recently by cfDNA. Differences in proteomic profiles may give an opportunity to find new biomarkers. OBJECTIVE: Characterize proteome of serum of mothers carrying DS fetus. MATERIAL AND METHODS: Blood serum samples of three groups of women were obtained, a) 10 non-pregnant, b) 10 pregnant with healthy fetus by ultrasound evaluation, c) 9 pregnant with DS fetus; Sample preparation was as follow: Albumin/IgG depletion, desalting, and trypsin digestion; the process was performed in nanoUPLC MS/MS...
April 16, 2017: Journal of Maternal-fetal & Neonatal Medicine
https://www.readbyqxmd.com/read/28396511/a-database-augmented-exosome-based-mass-spectrometry-approach-exemplarily-identifies-circulating-claudin-3-as-biomarker-in-prostate-cancer
#17
Thomas Stefan Worst, Jost von Hardenberg, Julia Christina Gross, Philipp Erben, Martina Schnoelzer, Ingrid Hausser, Peter Bugert, Maurice Stephan Michel, Michael Boutros
In prostate cancer and other malignancies sensitive and robust biomarkers are lacking or have relevant limitations. Prostate specific antigen (PSA), the only biomarker widely used in prostate cancer, is suffering from low specificity. Exosomes offer new perspectives in the discovery of blood-based biomarkers. Here we present a proof-of principle study for a proteomics-based identification pipeline, implementing existing data sources, to exemplarily identify exosome-based biomarker candidates in prostate cancer...
April 9, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/28390925/proteomic-analysis-of-human-plasma-and-peripheral-blood-mononuclear-cells-in-systemic-lupus-erythematosus-patients
#18
Sara Pinna, Sara Pasella, Marta Deiana, Angela Baralla, Andrea Mannu, Antonio Giovanni Emilio Masala, Piera Veronica Pileri, Nicola Deiana, Fabrizio Scognamillo, Carlo Pala, Angelo Zinellu, Ciriaco Carru, Luca Deiana
Systemic Lupus Erythematosus (SLE) is a systemic autoimmune disease with a broad spectrum of clinical presentations and incompletely understood pathogenesis. This autoimmune disease is characterized by alterations in both the innate and adaptive immune system that lead to the loss of immunologic tolerance. In autoimmune diseases particularly in SLE, early diagnosis, flare or remission phases can be difficult to identify. Proteomics can help to find new therapeutic targets and it also could help to better understand the cellular mechanisms...
April 5, 2017: Journal of Immunological Methods
https://www.readbyqxmd.com/read/28388551/phase-i-ib-study-of-olaparib-and-carboplatin-in-women-with-triple-negative-breast-cancer
#19
Jung-Min Lee, John L Hays, Victoria L Chiou, Christina M Annunziata, Elizabeth M Swisher, Maria I Harrell, Minshu Yu, Nicolas Gordon, Tristan M Sissung, Jiuping Ji, William D Figg, Lori Minasian, Stanley Lipkowitz, Bradford J Wood, James Doroshow, Elise C Kohn
PURPOSE: To investigate the safety, activity, and potential biomarkers of response to olaparib and carboplatin combination in sporadic triple negative breast cancer (TNBC). EXPERIMENTAL DESIGN: Metastatic or recurrent TNBC patients with no germline BRCA mutation or with BRCAPro scores <10% and a negative family history were eligible. A 3+3 dose escalation tested olaparib capsules (400mg bid, days1-7) with carboplatin AUC3-5 on day1 or 2 every 21 days, ≤ 8 cycles, with olaparib 400mg bid maintenance...
March 25, 2017: Oncotarget
https://www.readbyqxmd.com/read/28373857/alzheimer-s-disease-biomarkers-in-the-genome-blood-and-cerebrospinal-fluid
#20
REVIEW
Rose Ann Huynh, Chandra Mohan
Alzheimer's disease (AD) is a progressive neurodegenerative disorder that slowly destroys memory and thinking skills, resulting in behavioral changes. It is estimated that nearly 36 million are affected globally with numbers reaching 115 million by 2050. AD can only be definitively diagnosed at autopsy since its manifestations of senile plaques and neurofibrillary tangles throughout the brain cannot yet be fully captured with current imaging technologies. Current AD therapeutics have also been suboptimal. Besides identifying markers that distinguish AD from controls, there has been a recent drive to identify better biomarkers that can predict the rates of cognitive decline and neocortical amyloid burden in those who exhibit preclinical, prodromal, or clinical AD...
2017: Frontiers in Neurology
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