Microfluidics-Based Systems in Diagnosis of Alzheimer's Disease and Biomimetic Modeling
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The Arctic Sea Ice Biomarker IP25: a Review of Current Understanding, Recommendations for Future Research and Applications in Palaeo Sea Ice Reconstructions
Quaternary Science Reviews 79 (2013) 9e25 Contents lists available at SciVerse ScienceDirect Quaternary Science Reviews journal homepage: www.elsevier.com/locate/quascirev The Arctic sea ice biomarker IP25: a review of current understanding, recommendations for future research and applications in palaeo sea ice reconstructions Simon T. Belt a,*, Juliane Müller b a Biogeochemistry Research Centre, School of Geography, Earth and Environmental Sciences, Plymouth University, Plymouth PL4 8AA, UK b Alfred Wegener Institute for Polar and Marine Research, 27568 Bremerhaven, Germany article info abstract Article history: In recent years, a novel proxy for the past occurrence of Arctic sea ice has been proposed that is based Received 18 June 2012 on the variable marine sedimentary abundance of an organic geochemical lipid derived from sea ice Received in revised form diatoms in the spring. This lipid, termed IP25 (Ice Proxy with 25 carbon atoms), is a highly branched 29 November 2012 isoprenoid mono-unsaturated alkene that appears to be sufficiently stable in sediments to permit Accepted 4 December 2012 meaningful palaeo sea ice reconstructions to be carried out over short- to long-term timescales. Since Available online 17 January 2013 the first proposed use of IP25 as a proxy for palaeo sea ice by Belt et al. (2007), a number of laboratories have measured this biomarker in Arctic sediments and it is anticipated that research activity in this area Keywords: Sea ice will increase further in the future. The content of this review is divided into a number of sections. fi Arctic Firstly, we describe the scienti c basis for the IP25 proxy and its initial discovery in Arctic sea ice, Proxy sedimenting particles and sediments. -
Microtubule-Associated Protein Tau (Molecular Pathology/Neurodegenerative Disease/Neurofibriliary Tangles) M
Proc. Nati. Acad. Sci. USA Vol. 85, pp. 4051-4055, June 1988 Medical Sciences Cloning and sequencing of the cDNA encoding a core protein of the paired helical filament of Alzheimer disease: Identification as the microtubule-associated protein tau (molecular pathology/neurodegenerative disease/neurofibriliary tangles) M. GOEDERT*, C. M. WISCHIK*t, R. A. CROWTHER*, J. E. WALKER*, AND A. KLUG* *Medical Research Council Laboratory of Molecular Biology, Hills Road, Cambridge CB2 2QH, United Kingdom; and tDepartment of Psychiatry, University of Cambridge Clinical School, Hills Road, Cambridge CB2 2QQ, United Kingdom Contributed by A. Klug, March 1, 1988 ABSTRACT Screening of cDNA libraries prepared from (21). This task is made all the more difficult because there is the frontal cortex ofan zheimer disease patient and from fetal no functional or physiological assay for the protein(s) of the human brain has led to isolation of the cDNA for a core protein PHF. The only identification so far possible is the morphol- of the paired helical fiament of Alzheimer disease. The partial ogy of the PHFs at the electron microscope level, and here amino acid sequence of this core protein was used to design we would accept only experiments on isolated individual synthetic oligonucleotide probes. The cDNA encodes a protein of filaments, not on neurofibrillary tangles (in which other 352 amino acids that contains a characteristic amino acid repeat material might be occluded). One thus needs a label or marker in its carboxyl-terminal half. This protein is highly homologous for the PHF itself, which can at the same time be used to to the sequence ofthe mouse microtubule-assoiated protein tau follow the steps of the biochemical purification. -
The Biotech/Pharma Perspective
Biomarkers – The Biotech/Pharma perspective R&D manager - Kim Holmstrøm Bioneer What are Biomarkers? § The modern definition was proposed at the US National Institutes of Health workshop in 1998: “A biomarker is a characteristic that is objectively measured and evaluated as an indicator of normal biological processes, pathogenic processes or pharmacological responses to a therapeutic intervention.” 2 What are Biomarkers? Classical Molecular markers • Body temperature § Proteins (e.g. antibodies, • Blood pressure membrane receptors) • Heart rate, etc. § Hormones (e.g. peptide hormones, steroid hormones) • Imaging (MR, PET) § Carbohydrates (e.g. glucose) § Nucleic acids (DNA, mRNA, ncRNA) § Epigenetic factors (methylation, histone modifications) § Lipids (e.g. cholesterol) § Metabolites Biomarkers in human disease and drug development § Diagnostic - Determines the type of disease § Predictive - Identification of subpopulations of patients most likely to respond to a given treatment § Prognostic - Provides information of the likely course of e.g. a cancer disease § Mechanistic - Provides infomation on e.g. specific cell signaling mechanisms that are affected by a drug § Safety - Indicates toxicity effects 4 Genome for science, for health, for individuals Your genome First human genome 1000 Genome 50 Danish families Personal genomes! sequencing Project 150 genomes in total for everyone 1990-2002 2009-2012 The Danish reference (2015-2025) genome The human ! Human genome Healthy lifestyle “building blocks” variation 2011-2015 Prevention of -
Neurofilaments: Neurobiological Foundations for Biomarker Applications
Neurofilaments: neurobiological foundations for biomarker applications Arie R. Gafson1, Nicolas R. Barthelmy2*, Pascale Bomont3*, Roxana O. Carare4*, Heather D. Durham5*, Jean-Pierre Julien6,7*, Jens Kuhle8*, David Leppert8*, Ralph A. Nixon9,10,11,12*, Roy Weller4*, Henrik Zetterberg13,14,15,16*, Paul M. Matthews1,17 1 Department of Brain Sciences, Imperial College, London, UK 2 Department of Neurology, Washington University School of Medicine, St Louis, MO, USA 3 a ATIP-Avenir team, INM, INSERM , Montpellier university , Montpellier , France. 4 Clinical Neurosciences, Faculty of Medicine, University of Southampton, Southampton General Hospital, Southampton, United Kingdom 5 Department of Neurology and Neurosurgery, Montreal Neurological Institute, McGill University, Montreal, Québec, Canada 6 Department of Psychiatry and Neuroscience, Laval University, Quebec, Canada. 7 CERVO Brain Research Center, 2601 Chemin de la Canardière, Québec, QC, G1J 2G3, Canada 8 Neurologic Clinic and Policlinic, Departments of Medicine, Biomedicine and Clinical Research, University Hospital Basel, University of Basel, Basel, Switzerland. 9 Center for Dementia Research, Nathan Kline Institute, Orangeburg, NY, 10962, USA. 10Departments of Psychiatry, New York University School of Medicine, New York, NY, 10016, 11 Neuroscience Institute, New York University School of Medicine, New York, NY, 10016, USA. 12Department of Cell Biology, New York University School of Medicine, New York, NY, 10016, USA 13 University College London Queen Square Institute of Neurology, London, UK 14 UK Dementia Research Institute at University College London 15 Department of Psychiatry and Neurochemistry, Institute of Neuroscience and Physiology, the Sahlgrenska Academy at the University of Gothenburg, Mölndal, Sweden 16 Clinical Neurochemistry Laboratory, Sahlgrenska University Hospital, Mölndal, Sweden 17 UK Dementia Research Institute at Imperial College, London * Co-authors ordered alphabetically Address for correspondence: Prof. -
Operational Pathways for Biomarker Testing in Nsclc Environmental Scan
ASSOCIATION OF COMMUNITY CANCER CENTERS OPERATIONAL PATHWAYS FOR BIOMARKER TESTING IN NSCLC ENVIRONMENTAL SCAN TABLE OF CONTENTS Introduction . 1 Current Recommendations for Biomarker Testing in Advanced NSCLC . 1 Barriers to Testing . 2 Opportunities for Overcoming Operational Barriers . 3 Professional Education Pathology Integration Utilizing Lean Methodology Promotion of Cytology in Biomarker Testing Early and Automatic Biomarker Testing Comprehensive Precision Medicine Program Development Summary . 8 Appendix A: Role of Advocacy Groups in Communication, Awareness . 10 LungMATCH LUNGevity Take Aim Appendix B: Additional Studies on Biomarker Testing in NSCLC . 12 References . 13 Acknowledgements . 14 1 | OPERATIONAL PATHWAYS FOR BIOMARKER TESTING IN NSCLC ENVIRONMENTAL SCAN INTRODUCTION A crucial component of care for all patients with advanced stage non-small cell lung cancer (NSCLC) is timely, high-quality comprehensive biomarker testing at diagnosis, progression, and recurrence of disease. Completing comprehensive biomarker testing ensures that patients will be given access to therapies and clinical trials targeted at their cancer’s mutation, and that they will have the information needed to participate in their healthcare decision-making. While actionable biomarkers increasingly guide clinical treatment plans, studies show that several barriers exist to successfully implementing biomarker testing in both the academic and community cancer settings. The Association of Community Cancer Centers (ACCC) has partnered with the Association for Molecular Pathology and LUNGevity in a two-year multiphase effort to aid cancer programs in implementing clinical practice guidelines for biomarker testing for all patients being treated for advanced non-small cell lung cancer. This education project aims to bridge the knowledge gap between the rapidly evolving landscape in actionable biomarkers for patients with advanced NSCLC and integration of biomarker testing into practice through “operational pathways” to implement testing recommendations in every care setting. -
Expression of Separate Isoforms of Human Tau Protein: Correlation with the Tau Pattern in Brain and Effects on Tubulin Polymerization
The EMBO Journal vol.9 no.13 pp.4225-4230, 1990 Expression of separate isoforms of human tau protein: correlation with the tau pattern in brain and effects on tubulin polymerization Michel Goedert and Ross Jakes half of the molecule. Experiments using tau fragments synthesized in vitro and synthetic peptides have shown that Medical Research Council Laboratory of Molecular Biology, Hills the repeats constitute microtubule binding units (Aizawa et Road, Cambridge CB2 2QH, UK al., 1989; Ennulat et al., 1989; Himmler et al., 1989; Lee Communicated by R.A.Crowther et al., 1989). Additional isoforms exist which contain 29 or 58 amino acid insertions in the amino-terminal region in conjunction with three or four repeats, giving rise in humans We have expressed six previously cloned isoforms of to a total of six different isoforms identified from full-length human microtubule-associated tau protein in Escherichia cDNA clones (Goedert et al., 1989b). The shortest human coli and purified them to homogeneity in a biologically form is 352 amino acids in length and contains three repeats, active form. They range from 352 to 441 amino acids in whereas the largest form is 441 amino acids in length and length and differ from each other by the presence of three contains four repeats and the 58 amino acid insertion. By or four tandem repeats in the carboxy-terminal half and RNase protection assay on human brain, mRNAs encoding by the presence or absence of 29 or 58 amino acid inserts three-repeat containing isoforms are found both in fetal and in the amino-terminus. -
Formation of Hirano Bodies in Cell Culture 1941
Research Article 1939 Formation of Hirano bodies in Dictyostelium and mammalian cells induced by expression of a modified form of an actin-crosslinking protein Andrew G. Maselli, Richard Davis, Ruth Furukawa and Marcus Fechheimer* Department of Cellular Biology, University of Georgia, Athens, Georgia 30602, USA *Author for correspondence (e-mail: [email protected]) Accepted 26 February 2002 Journal of Cell Science 115, 1939-1952 (2002) © The Company of Biologists Ltd Summary We report the serendipitous development of the first pathological conditions. Furthermore, expression of the cultured cell models of Hirano bodies. Myc-epitope-tagged CT fragment in murine L cells results in F-actin forms of the 34 kDa actin bundling protein (amino acids 1- rearrangements characterized by loss of stress fibers, 295) and the CT fragment (amino acids 124-295) of the 34 accumulation of numerous punctate foci, and large kDa protein that exhibits activated actin binding and perinuclear aggregates, the Hirano bodies. Thus, failure to calcium-insensitive actin filament crosslinking activity regulate the activity and/or affinity of an actin crosslinking were expressed in Dictyostelium and mammalian cells to protein can provide a signal for formation of Hirano bodies. assess the behavior of these modified forms in vivo. More generally, formation of Hirano bodies is a cellular Dictyostelium cells expressing the CT-myc fragment: (1) response to or a consequence of aberrant function of the form ellipsoidal regions that contain ordered assemblies of actin cytoskeleton. The results reveal that formation of F-actin, CT-myc, myosin II, cofilin and α-actinin; (2) grow Hirano bodies is not necessarily related to cell death. -
Biomarkers Related to Drug Or Biotechnology Product Development: Context , Structure and Format of Qualification Submissions
BIOMARKERS RELATED TO DRUG OR BIOTECHNOLOGY PRODUCT DEVELOPMENT: CONTEXT , STRUCTURE AND FORMAT OF QUALIFICATION SUBMISSIONS. E16. http://www.ich.org/LOB/media/MEDIA55 18.pdf International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use Voluntaryyp eXplorator y Data Submissions Training reviewers in the analysis of exploratory biomarker data. Training sponsors in the capabilities of our reviewers for the analysis and interpretation of biomarker data. VOLUNTARY Receiving eXploratoryGenomicGenomic Data DataData Tracking SbSSbSuSubmissionubbmm iss iss ion ion Archiving IPRG (Interdisciplinary Pharmacogenomics Review Group) The image cannot be displayed. Your computer may not have enough memory to open the image, or the image may have been corrupted. Restart y our computer, and then open the file again. If the red x still appears, y ou may hav e to delete the image and then insert it again. Feedback to Sponsor Report VXDSVXDS ReviewReview Public Meetings Education and Workshops Knowledge with Industry Management Exploratory Biomarkers Qualified Biomarkers (VXDS Meetings) (Biomarker Qualification Process) A decision by a sponsor to reanalyze and submit data based on the availability of a newly qualified biomarker should be made in the context of other available nonclinical and clinical data . Regulatory Applications …any additional data required to support qualification for regulatory use will be expected to depend on what data may already be publicly available, data that may lie within -
Programmable Paper-Based Microfluidic Devices for Biomarker Detections
micromachines Review Programmable Paper-Based Microfluidic Devices for Biomarker Detections Veasna Soum , Sooyong Park, Albertus Ivan Brilian , Oh-Sun Kwon and Kwanwoo Shin * Department of Chemistry, Institute of Biological Interfaces, Sogang University, Seoul 04107, Korea * Correspondence: [email protected] Received: 1 July 2019; Accepted: 1 August 2019; Published: 2 August 2019 Abstract: Recent advanced paper-based microfluidic devices provide an alternative technology for the detection of biomarkers by using affordable and portable devices for point-of-care testing (POCT). Programmable paper-based microfluidic devices enable a wide range of biomarker detection with high sensitivity and automation for single- and multi-step assays because they provide better control for manipulating fluid samples. In this review, we examine the advances in programmable microfluidics, i.e., paper-based continuous-flow microfluidic (p-CMF) devices and paper-based digital microfluidic (p-DMF) devices, for biomarker detection. First, we discuss the methods used to fabricate these two types of paper-based microfluidic devices and the strategies for programming fluid delivery and for droplet manipulation. Next, we discuss the use of these programmable paper-based devices for the single- and multi-step detection of biomarkers. Finally, we present the current limitations of paper-based microfluidics for biomarker detection and the outlook for their development. Keywords: paper-based microfluidic device; flow control; droplet actuation; multi-step assay; biomarker detection; digital microfluidic device 1. Introduction Because of cost, disposable, paper-based microfluidic devices have become an attractive tool for point-of-care testing (POCT) and medical screening in the developing world. Paper-based, continuous-flow microfluidic (p-CMF) devices were first invented in 1949 by Müller and Clegg [1]; however, no proof of concept for the use of such devices for portable, onsite detection in biosensing applications was reported until 2007 when Whitesides’ group published their report [2]. -
Policy Issues for the Development and Use of Biomarkers in Health
Policy Issues for the Development and Use of Biomarkers in Health Organisation for Economic Co-operation and Development (OECD) The OECD is a unique forum where governments work together to address the economic, social and environmental challenges of globalisation. The OECD is also at the forefront of efforts to understand and to help governments respond to new developments and concerns, such as corporate governance, the information economy and the challenges of an ageing population. The Organisation provides a setting where governments can compare policy experiences, seek answers to common problems, identify good practice and work to co-ordinate domestic and international policies. The OECD member countries are: Australia, Austria, Belgium, Canada, Chile, the Czech Republic, Denmark, Estonia, Finland, France, Germany, Greece, Hungary, Iceland, Ireland, Israel, Italy, Japan, Korea, Luxembourg, Mexico, the Netherlands, New Zealand, Norway, Poland, Portugal, the Slovak Republic, Slovenia, Spain, Sweden, Switzerland, Turkey, the United Kingdom and the United States. The European Union takes part in the work of the OECD. OECD Directorate for Science, Technology and Industry (DSTI) The Directorate for Science, Technology and Industry leads the OECD’s work on knowledge-based sources of economic and social growth and, more specifically, on the translation of science, technology and knowledge into innovation. For further information about our work on biotechnology please visit www.oecd.org/sti/biotechnology © OECD 2011 Cover photo: © rolffimages - Fotolia.com 2 POLICY ISSUES FOR THE DEVELOPMENT AND USE OF BIOMARKERS IN HEALTH – © OECD 2011 Foreword Application of biomarkers in the field of human health is improving our understanding of disease, and will provide new knowledge of disease mechanisms and processes providing a means for improved health management through the earlier diagnosis of disease and the delivery of more efficacious and safer therapies. -
Biomarkers in Nutritional Epidemiology: Applications, Needs and New Horizons
Hum Genet (2009) 125:507–525 DOI 10.1007/s00439-009-0662-5 REVIEW ARTICLE Biomarkers in nutritional epidemiology: applications, needs and new horizons Mazda Jenab · Nadia Slimani · Magda Bictash · Pietro Ferrari · Sheila A. Bingham Received: 16 January 2009 / Accepted: 27 March 2009 / Published online: 9 April 2009 © Springer-Verlag 2009 Abstract Modern epidemiology suggests a potential many functional dietary biomarkers that, if utilized appro- interactive association between diet, lifestyle, genetics and priately, can be very informative, a better understanding of the risk of many chronic diseases. As such, many epidemio- the interactions between diet and genes as potentially deter- logic studies attempt to consider assessment of dietary mining factors in the validity, application and interpretation intake alongside genetic measures and other variables of of dietary biomarkers is necessary. It is the aim of this interest. However, given the multi-factorial complexities of review to highlight how some important biomarkers are dietary exposures, all dietary intake assessment methods being applied in nutrition epidemiology and to address are associated with measurement errors which aVect dietary some associated questions and limitations. This review also estimates and may obscure disease risk associations. For emphasizes the need to identify new dietary biomarkers and this reason, dietary biomarkers measured in biological highlights the emerging Weld of nutritional metabonomics specimens are being increasingly used as additional or sub- as an analytical method to assess metabolic proWles as mea- stitute estimates of dietary intake and nutrient status. sures of dietary exposures and indicators of dietary pat- Genetic variation may inXuence dietary intake and nutrient terns, dietary changes or eVectiveness of dietary metabolism and may aVect the utility of a dietary biomarker interventions. -
Clinical Development Success Rates 2006-2015
Clinical Development Success Rates 2006-2015 Biomedtracker Pharma intelligence | June 2016 About BIO BIO is the world’s largest trade association representing biotechnology companies, academic institutions, state biotechnology centers and related organizations across the United States and in more than 30 other nations. BIO members are involved in the research and development of innovative healthcare, agricultural, industrial and environmental biotechnology products. BIO also produces the BIO International Convention, the world’s largest gathering of the biotechnology industry, along with industry- leading investor and partnering meetings held around the world. About Biomedtracker BioMedTracker, a subscription-based product of Informa, tracks the clinical development and regulatory history of investigational drugs to assess its Likelihood of Approval (LOA) by the FDA. BioMedTracker is populated in near real-time with updated information from press releases, corporate earnings calls, investor and medical meetings and numerous other sources. About Amplion Amplion is the leading biomarker business intelligence company, and its flagship product BiomarkerBase™, along with consulting services and free reports, deliver insights that inform key strategic decisions for drug and diagnostic test developers. Since 2012 Amplion has helped large and small companies alike make the best use of biomarkers in advancing precision therapeutics and next generation diagnostics. BiomarkerBase is a subscription-based service that tracks biomarker usage in clinical trials, drug labels, and tests (including laboratory-developed, FDA-cleared, and FDA- approved tests). BiomarkerBase is updated weekly with information from these sources and publications, using supervised machine learning algorithms for natural language processing (Amplion BiomarkerEngine) to identify biomarkers. 2 | BIO Industry Analysis Executive Summary This is the largest study of clinical drug development success rates to date.