Uvic Thesis Template
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Management of Large Sets of Image Data Capture, Databases, Image Processing, Storage, Visualization Karol Kozak
Management of large sets of image data Capture, Databases, Image Processing, Storage, Visualization Karol Kozak Download free books at Karol Kozak Management of large sets of image data Capture, Databases, Image Processing, Storage, Visualization Download free eBooks at bookboon.com 2 Management of large sets of image data: Capture, Databases, Image Processing, Storage, Visualization 1st edition © 2014 Karol Kozak & bookboon.com ISBN 978-87-403-0726-9 Download free eBooks at bookboon.com 3 Management of large sets of image data Contents Contents 1 Digital image 6 2 History of digital imaging 10 3 Amount of produced images – is it danger? 18 4 Digital image and privacy 20 5 Digital cameras 27 5.1 Methods of image capture 31 6 Image formats 33 7 Image Metadata – data about data 39 8 Interactive visualization (IV) 44 9 Basic of image processing 49 Download free eBooks at bookboon.com 4 Click on the ad to read more Management of large sets of image data Contents 10 Image Processing software 62 11 Image management and image databases 79 12 Operating system (os) and images 97 13 Graphics processing unit (GPU) 100 14 Storage and archive 101 15 Images in different disciplines 109 15.1 Microscopy 109 360° 15.2 Medical imaging 114 15.3 Astronomical images 117 15.4 Industrial imaging 360° 118 thinking. 16 Selection of best digital images 120 References: thinking. 124 360° thinking . 360° thinking. Discover the truth at www.deloitte.ca/careers Discover the truth at www.deloitte.ca/careers © Deloitte & Touche LLP and affiliated entities. Discover the truth at www.deloitte.ca/careers © Deloitte & Touche LLP and affiliated entities. -
P75 Neurotrophin Receptor Function in Brain Development
p75 neurotrophin receptor function in brain development Sonja Meier BSc, MSc A thesis submitted for the degree of Doctor of Philosophy at The University of Queensland in 2020 Queensland Brain Institute Abstract Embryonic brain development is a complex process in which expression patterns of receptors and transcription factors control the generation of many different cell types from a common precursor, as well as their subsequent temporal and spatial distribution within different regions of the brain. Although these programs are tightly regulated to ensure formation of functional neuronal networks, the external cues that govern these processes are still largely unknown. The p75 neurotrophin receptor (p75NTR) has been identified as a key regulator in the development of a range of cell types, including neural progenitors of the peripheral nervous system. As a cell surface receptor, p75NTR can initiate direct environment-to-cell communication and coordinate important aspects of neurogenesis including survival, proliferation, specification, migration, and/or differentiation. However, the function of p75NTR in development of the central nervous system had not been studied comprehensively. The aim of the thesis is to elucidate the role of p75NTR in brain development and, more specifically, to investigate how neocortical progenitor fate is regulated by p75NTR using conditional p75NTR knockout mice. We found that p75NTR is most highly expressed during cortical development in post-mitotic neuronal cells, but that loss of p75NTR expression during embryogenesis in progenitor cells has widespread ramifications on the development of the neocortex and basal ganglia due to effects on progenitor populations. Specifically, p75NTR expression is required for the survival of neuron-specified intermediate progenitor cells (IPCs) and for the generation of appropriate numbers of pyramidal cortical neurons and parvalbumin (PV)-positive interneurons. -
ACNP 57Th Annual Meeting: Poster Session I
www.nature.com/npp ABSTRACTS COLLECTION ACNP 57th Annual Meeting: Poster Session I Sponsorship Statement: Publication of this supplement is sponsored by the ACNP. Individual contributor disclosures may be found within the abstracts. Asterisks in the author lists indicate presenter of the abstract at the annual meeting. https://doi.org/10.1038/s41386-018-0266-7 M1. Lifespan Effects of Early Life Stress on Aging-Related Conclusions: These findings suggest a role for ELA in the form Trajectory of Memory Decline of poor maternal care in increasing the likelihood to development of peripheral IR, altered central glucocorticoid function and Benedetta Bigio*, Danielle Zelli, Timothy Lau, Paolo de Angelis, corresponding anxiety states in adulthood, and that these factors Daniella Miller, Jonathan Lai, Anisha Kalidindi, Susan Harvey, Anjali may encode lifelong susceptibility to pathophysiological aging. Ferris, Aleksander Mathe, Francis Lee, Natalie Rasgon, Bruce McEwen, Given our earlier reported association between IR and a LAC Carla Nasca deficiency, a candidate biomarker of major depression that is a risk factor for aging-associated memory decline, we are currently Rockefeller University, New York, New York, United States assessing LAC levels in this mechanistic framework. This model may provide endpoints for identification of early windows of opportunities for preemptive tailored interventions. Background: Early life adversities (ELA), such as variations in Keywords: Early Life Adversity, Glucocorticoids, Insulin Resis- maternal care of offspring, are critical factors underlying the tance, Glutamate, Memory Function individual likelihood to development of multiple psychiatric and Disclosure: Nothing to disclose. medical disorders. For example, our new translation findings suggest a role of ELA in the form of childhood trauma on fi development of metabolic dysfunction, such as a de ciency in M2. -
Table of Content
UNRAVELING PSYCHIATRIC SUB-PHENOTYPES: THE PRICE OF THE REDUCTION OF MYELIN BASIC PROTEIN Dissertation for the award of the degree “Doctor of Philosophy” (Ph.D.) Division of Mathematics and Natural Sciences of the Georg-August-Universität Göttingen submitted by Giulia Poggi from Novara – ITALIA Göttingen 2015 Members of the Thesis Committee Prof. Hannelore Ehrenreich (Supervisor, first reviewer) Clinical Neuroscience Max Planck Institute of Experimental Medicine Hermann-Rein straße 3 37075 Göttingen Germany Prof. Klaus-Armin Nave (second reviewer) Department of Neurogenetics Max Planck Institute of Experimental Medicine Hermann-Rein straße 3 37075 Göttingen Germany Prof. Mikael Simons Cellular Neuroscience Max Planck Institute of Experimental Medicine Hermann-Rein straße 3 37075 Göttingen Germany Date of the thesis submission: 31.10.2015 Date of the oral examination: 08.01.2016 I hereby declare that the thesis “UNRAVELING PSYCHIATRIC SUB- PHENOTYPES:THE PRICE OF THE REDUCTION OF MYELIN BASIC PROTEIN” has been written independently and with no other sources and aids than quoted. Göttingen, 31.10.2015 Giulia Poggi Acknowledgement Someone said that the most complicated part of a PhD thesis is the discussion, where one really needs to show the scientific competence in interpreting data… Someone else told me: “The introduction… oh God, terrible! After that everything runs smoothly!” …I am telling you know… going through memories of “how I got here”… This is probably the most challenging part of this PhD thesis… It was a long way and it definitely would not have been the way it was without the people that “walked” with me… To these people, I express my infinite gratitude… …Prof. -
Supplementary Information
Supplementary Information CatWalk gait analysis Gait patterns were analyzed with the CatWalk XT analysis system (Noldus version 10.6, Wageningen, Netherlands). This system consists of an enclosed walkway on a glass plate that is traversed by the mouse from one side of the walkway to the other. Green light which enters at the long edge of the plate is completely internally reflected. Where the paws of the animal touch the glass plate, light emerges leading to its scattering. The paws are captured by a high speed video camera that is positioned underneath the walkway by using Illuminated Footprint™ technology. The gait pattern was recorded according to pre-set paradigms [1]. Treadmill exhaustion test A detailed protocol for treadmill is published elsewhere [2]. Briefly, the animals were forced to run on a treadmill (Shenyang Sino King Equipment, Shenyang, China) by light electric shocks. At first, the mice were trained for 5 min at a speed of 10 m/min for two consecutive days. On the third day, this initial speed was gradually increased by 2 m/min every 2 min, up to a maximum speed of 46 m/min. The experiment was stopped as soon as the mouse was exhausted and stayed in the shock zone for more than 12 s. Active place avoidance (APA) The APA is a circular metal arena shock grid underneath a rotating arena surrounded by a transparent wall (Sygnis Bioscience, Heidelberg, Germany). A random 60° sector was set as non-rotating shock zone, where the animals received a 0.4 mA electric shock upon entry and further identical shocks every 1.5 s, if they did not leave the sector. -
Bio-Formats Documentation Release 5.0.4
Bio-Formats Documentation Release 5.0.4 The Open Microscopy Environment September 01, 2014 CONTENTS I About Bio-Formats 2 1 Why Java? 4 2 Bio-Formats metadata processing 5 3 Help 6 3.1 Reporting a bug ................................................... 6 3.2 Troubleshooting ................................................... 7 4 Bio-Formats versions 9 4.1 Version history .................................................... 9 II User Information 25 5 Using Bio-Formats with ImageJ and Fiji 26 5.1 ImageJ overview ................................................... 26 5.2 Fiji overview ..................................................... 27 5.3 Bio-Formats features in ImageJ and Fiji ....................................... 27 5.4 Installing Bio-Formats in ImageJ .......................................... 28 5.5 Using Bio-Formats to load images into ImageJ ................................... 30 5.6 Managing memory in ImageJ/Fiji using Bio-Formats ................................ 33 6 Command line tools 37 6.1 Command line tools introduction .......................................... 37 6.2 Displaying images and metadata ........................................... 38 6.3 Converting a file to different format ......................................... 39 6.4 Validating XML in an OME-TIFF .......................................... 40 6.5 Editing XML in an OME-TIFF ........................................... 41 7 OMERO 42 8 Image server applications 43 8.1 BISQUE ....................................................... 43 8.2 OME Server .................................................... -
Adenosine and Forskolin Inhibit Platelet Aggregation by Collagen But
University of Birmingham Adenosine and forskolin inhibit platelet aggregation by collagen but not the proximal signalling events Clark, Joanne; Kavanagh, Deirdre; Watson, Stephanie; Pike, Jeremy; Andrews, Robert; Gardiner, Elizabeth E.; Poulter, Natalie; Hill, Stephen J; Watson, Steve DOI: 10.1055/s-0039-1688788 License: Other (please specify with Rights Statement) Document Version Peer reviewed version Citation for published version (Harvard): Clark, J, Kavanagh, D, Watson, S, Pike, J, Andrews, R, Gardiner, EE, Poulter, N, Hill, SJ & Watson, S 2019, 'Adenosine and forskolin inhibit platelet aggregation by collagen but not the proximal signalling events', Thrombosis and Haemostasis, vol. 119, no. 07, pp. 1124-1137. https://doi.org/10.1055/s-0039-1688788 Link to publication on Research at Birmingham portal Publisher Rights Statement: Adenosine and Forskolin Inhibit Platelet Aggregation by Collagen but not the Proximal Signalling Events, Joanne C. Clark et al, Thromb Haemost 2019; 119(07): 1124-1137, DOI: 10.1055/s-0039-1688788, © Georg Thieme Verlag KG 2019 General rights Unless a licence is specified above, all rights (including copyright and moral rights) in this document are retained by the authors and/or the copyright holders. The express permission of the copyright holder must be obtained for any use of this material other than for purposes permitted by law. •Users may freely distribute the URL that is used to identify this publication. •Users may download and/or print one copy of the publication from the University of Birmingham research portal for the purpose of private study or non-commercial research. •User may use extracts from the document in line with the concept of ‘fair dealing’ under the Copyright, Designs and Patents Act 1988 (?) •Users may not further distribute the material nor use it for the purposes of commercial gain. -
S41467-021-24869-0.Pdf
ARTICLE https://doi.org/10.1038/s41467-021-24869-0 OPEN Cardiac-specific deletion of voltage dependent anion channel 2 leads to dilated cardiomyopathy by altering calcium homeostasis Thirupura S. Shankar 1,2, Dinesh K. A. Ramadurai1, Kira Steinhorst3, Salah Sommakia1, Rachit Badolia1, Aspasia Thodou Krokidi1, Dallen Calder1, Sutip Navankasattusas1, Paulina Sander 3, Oh Sung Kwon4,5, Aishwarya Aravamudhan1, Jing Ling1, Andreas Dendorfer 6,7, Changmin Xie8, Ohyun Kwon 8, Emily H. Y. Cheng9, Kevin J. Whitehead10, Thomas Gudermann3,7, Russel S. Richardson5, Frank B. Sachse1,2, ✉ Johann Schredelseker 3,7, Kenneth W. Spitzer1,10, Dipayan Chaudhuri 1,10 & Stavros G. Drakos 1,2,10 1234567890():,; Voltage dependent anion channel 2 (VDAC2) is an outer mitochondrial membrane porin known to play a significant role in apoptosis and calcium signaling. Abnormalities in calcium homeostasis often leads to electrical and contractile dysfunction and can cause dilated cardiomyopathy and heart failure. However, the specific role of VDAC2 in intracellular cal- cium dynamics and cardiac function is not well understood. To elucidate the role of VDAC2 in calcium homeostasis, we generated a cardiac ventricular myocyte-specific developmental deletion of Vdac2 in mice. Our results indicate that loss of VDAC2 in the myocardium causes severe impairment in excitation-contraction coupling by altering both intracellular and mitochondrial calcium signaling. We also observed adverse cardiac remodeling which pro- gressed to severe cardiomyopathy and death. Reintroduction of VDAC2 in 6-week-old knock- out mice partially rescued the cardiomyopathy phenotype. Activation of VDAC2 by efsevin increased cardiac contractile force in a mouse model of pressure-overload induced heart failure. -
2014 SUMMER RESEARCH PROGRAM STUDENT ABSTRACTS This Page Left Blank
2014 SUMMER RESEARCH PROGRAM STUDENT ABSTRACTS This page left blank 2 Contents Preface………………………………………………………… 5 Acknowledgements ………………………………………… 7 Lab Research Ownership …………………………………. 9 Index Medical Students ………………………………………... 11 Undergraduate Students ……………………………….. 12 International Medical Students ………………………… 13 Abstracts – Medical Students …………………………… 14 Abstracts – Undergraduates ……………………………. 105 Abstracts – International Medical Students ……..…….. 144 3 This page left blank 4 Preface The University of Texas Medical School at Houston (UTMSH) Summer Research Program provides intensive, hands-on laboratory research training for MS-1 medical students and undergraduate college students under the direct supervision of experienced faculty researchers and educators. These faculty members’ enthusiasm for scientific discovery and commitment to teaching is vital for a successful training program. It is these dedicated scientists who organize the research projects to be conducted by the students. The trainee’s role in the laboratory is to participate to the fullest extent of her/his ability in the research project being performed. This involves carrying out the technical aspects of experimental analysis, interpreting data and summarizing results. The results are presented as an abstract and are written in the trainees’ own words that convey an impressive degree of understanding of the complex projects in which they were involved. To date, more than 1,800 medical, college, and international medical students have gained research experience through -
1.4 Glucose Transport
Koester, Anna Magdalena (2021) The spatial dynamics of insulin-regulated GLUT4 dispersal. PhD thesis. http://theses.gla.ac.uk/82077/ Copyright and moral rights for this work are retained by the author A copy can be downloaded for personal non-commercial research or study, without prior permission or charge This work cannot be reproduced or quoted extensively from without first obtaining permission in writing from the author The content must not be changed in any way or sold commercially in any format or medium without the formal permission of the author When referring to this work, full bibliographic details including the author, title, awarding institution and date of the thesis must be given Enlighten: Theses https://theses.gla.ac.uk/ [email protected] The spatial dynamics of insulin- regulated GLUT4 dispersal Anna Magdalena Koester MSci, MRes Thesis submitted in fulfilment of the requirements for the Degree of Doctor of Philosophy Institute of Molecular, Cell and Systems Biology College of Medical, Veterinary and Life Sciences University of Glasgow January 2021 ii Abstract Insulin regulates glucose homeostasis by stimulation of glucose transport into adipose and muscle tissues through the regulated trafficking of glucose transporter 4 (GLUT4). In response to insulin GLUT4 rapidly translocates from intracellular storage sites to the plasma membrane where it facilitates glucose uptake. Significant impairments in glucose transport and GLUT4 trafficking are a major hallmark of diabetes mellitus type II. Recent advances in light microscopy techniques enabled the study of GLUT4 dynamics in the plasma membrane and it was reported that the transporter was clustered in the basal state and insulin stimulation resulted in GLUT4 dispersal.