Prognostic Significance of AKR1B10 Gene Expression in Hepatocellular
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Oxidative Stress-Induced Chromosome Breaks Within
Tan et al. Human Genomics (2018) 12:29 https://doi.org/10.1186/s40246-018-0160-8 PRIMARY RESEARCH Open Access Oxidative stress-induced chromosome breaks within the ABL gene: a model for chromosome rearrangement in nasopharyngeal carcinoma Sang-Nee Tan1, Sai-Peng Sim1* and Alan Soo-Beng Khoo2 Abstract Background: The mechanism underlying chromosome rearrangement in nasopharyngeal carcinoma (NPC) remains elusive. It is known that most of the aetiological factors of NPC trigger oxidative stress. Oxidative stress is a potent apoptotic inducer. During apoptosis, chromatin cleavage and DNA fragmentation occur. However, cells may undergo DNA repair and survive apoptosis. Non-homologous end joining (NHEJ) pathway has been known as the primary DNA repair system in human cells. The NHEJ process may repair DNA ends without any homology, although region of microhomology (a few nucleotides) is usually utilised by this DNA repair system. Cells that evade apoptosis via erroneous DNA repair may carry chromosomal aberration. Apoptotic nuclease was found to be associated with nuclear matrix during apoptosis. Matrix association region/scaffold attachment region (MAR/SAR) is the binding site of the chromosomal DNA loop structure to the nuclear matrix. When apoptotic nuclease is associated with nuclear matrix during apoptosis, it potentially cleaves at MAR/SAR. Cells that survive apoptosis via compromised DNA repair may carry chromosome rearrangement contributing to NPC tumourigenesis. The Abelson murine leukaemia (ABL) gene at 9q34 was targeted in this study as 9q34 is a common region of loss in NPC. This study aimed to identify the chromosome breakages and/or rearrangements in the ABL gene in cells undergoing oxidative stress-induced apoptosis. -
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Patterns of DNA methylation on the human X chromosome and use in analyzing X-chromosome inactivation by Allison Marie Cotton B.Sc., The University of Guelph, 2005 A THESIS SUBMITTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY in The Faculty of Graduate Studies (Medical Genetics) THE UNIVERSITY OF BRITISH COLUMBIA (Vancouver) January 2012 © Allison Marie Cotton, 2012 Abstract The process of X-chromosome inactivation achieves dosage compensation between mammalian males and females. In females one X chromosome is transcriptionally silenced through a variety of epigenetic modifications including DNA methylation. Most X-linked genes are subject to X-chromosome inactivation and only expressed from the active X chromosome. On the inactive X chromosome, the CpG island promoters of genes subject to X-chromosome inactivation are methylated in their promoter regions, while genes which escape from X- chromosome inactivation have unmethylated CpG island promoters on both the active and inactive X chromosomes. The first objective of this thesis was to determine if the DNA methylation of CpG island promoters could be used to accurately predict X chromosome inactivation status. The second objective was to use DNA methylation to predict X-chromosome inactivation status in a variety of tissues. A comparison of blood, muscle, kidney and neural tissues revealed tissue-specific X-chromosome inactivation, in which 12% of genes escaped from X-chromosome inactivation in some, but not all, tissues. X-linked DNA methylation analysis of placental tissues predicted four times higher escape from X-chromosome inactivation than in any other tissue. Despite the hypomethylation of repetitive elements on both the X chromosome and the autosomes, no changes were detected in the frequency or intensity of placental Cot-1 holes. -
The Role of Genetics Mutations in Genes PORCN, TWIST2, HCCS In
ISSN: 2378-3672 Asadi and Jamali. Int J Immunol Immunother 2019, 6:038 DOI: 10.23937/2378-3672/1410038 Volume 6 | Issue 1 International Journal of Open Access Immunology and Immunotherapy REVIEW ARTICLE The Role of Genetics Mutations in Genes PORCN, TWIST2, HCCS in Goltz Syndrome Shahin Asadi1* and Mahsa Jamali2 Check for updates Division of Medical Genetics and Molecular Pathology Research, Molecular Genetics-IRAN-TABRIZ, Iran *Corresponding author: Shahin Asadi, Division of Medical Genetics and Molecular Pathology Research, Molecular Genetics-IRAN-TABRIZ, Iran are usually formed around the nose, the lips, the anal Abstract holes and the genitals of women with Goltz syndrome. Goltz syndrome (focal skin hypoplasia) is a genetic disorder In addition, papillomas may be present in the throat, that primarily affects the skin, skeletal system, eyes and face. People with Goltz syndrome have birth defects. These especially in the esophagus or larynx, and can cause disorders include very thin skin veins (skin hypoplasia), pink swallowing, respiration or sleep poisoning. The papillo- yellow nodules, subcutaneous fat, lack of upper skin layers mas can be removed if necessary by surgery from the (aplasia cutis), small clusters of superficial skin vessels growing regions. People with Goltz syndrome may have (telangiectasia), and veins in dark skin Or bright. Goltz syndrome is caused by mutation genes PORCN, TWIST2, small and abnormal nails on the toes. In addition, hair in HCCS. the scalp of these people can be weak or fragile or not [2] (Figure 2). Keywords Goltz syndrome, PORCN, TWIST2, HCCS genes, Skin and Many people with Goltz syndrome also have hand Skeletal disorders and foot disorders, including abnormalities such as oligodactyly in fingers and toes, fingers and legs (cin- Generalizations of Goltz Syndrome dactyly) or ecd rhodactyly. -
Chemical Reactions, and Cellular Respiration
Chapter 03 Lecture Outline See separate PowerPoint slides for all figures and tables pre- inserted into PowerPoint without notes. Copyright © McGraw-Hill Education. Permission required for reproduction or display. 1 Energy, Chemical Reactions, and Cellular Respiration • All living organisms require energy to – Power muscle – Pump blood – Absorb nutrients – Exchange respiratory gases – Synthesize new molecules – Establish cellular ion concentrations • Glucose broken down through metabolic pathways – Forms ATP, the “energy currency” of cells 2 3.1a Classes of Energy • Energy – Capacity to do work – Two classes of energy o Potential energy—stored energy (energy of position) o Kinetic energy—energy of motion – Both can be converted from one class to the other 3 3.1a Classes of Energy • Potential energy and the plasma membrane – Concentration gradient exists across plasma membrane o Boundary between inside and outside of cell • Potential energy and electron shells – Electrons move from a higher- to lower-energy shell – Kinetic energy can be harnessed to do work • Potential energy must be converted to kinetic energy before it can do work 4 Conversion of Potential Energy to Kinetic Energy Figure 3.1 5 3.1b Forms of Energy • Chemical energy – One form of potential energy – Energy stored in a molecule’s chemical bonds – Most important form of energy in the human body – Used for o Movement o Molecule synthesis o Establishing concentration gradients – Present in all chemical bonds – Released when bonds are broken during reactions 6 3.1b Forms of -
NASH, Fibrosis and Hepatocellular Carcinoma: Lipid Synthesis and Glutamine/Acetate Signaling
International Journal of Molecular Sciences Review NASH, Fibrosis and Hepatocellular Carcinoma: Lipid Synthesis and Glutamine/Acetate Signaling Yoshiaki Sunami Department of Visceral, Vascular and Endocrine Surgery, Martin-Luther-University Halle-Wittenberg, University Medical Center Halle, 06120 Halle, Germany; [email protected]; Tel.: +49-345-557-2794 Received: 31 July 2020; Accepted: 8 September 2020; Published: 16 September 2020 Abstract: Primary liver cancer is predicted to be the sixth most common cancer and the fourth leading cause of cancer mortality worldwide. Recent studies identified nonalcoholic fatty liver disease (NAFLD) as the underlying cause in 13–38.2% of patients with hepatocellular carcinoma unrelated to viral hepatitis and alcohol abuse. NAFLD progresses to nonalcoholic steatohepatitis (NASH), which increases the risk for the development of liver fibrosis, cirrhosis, and hepatocellular carcinoma. NAFLD is characterized by dysregulation of lipid metabolism. In addition, lipid metabolism is effected not only in NAFLD, but also in a broad range of chronic liver diseases and tumor development. Cancer cells manipulate a variety of metabolic pathways, including lipid metabolism, in order to build up their own cellular components. Identifying tumor dependencies on lipid metabolism would provide options for novel targeting strategies. This review article summarizes the research evidence on metabolic reprogramming and focuses on lipid metabolism in NAFLD, NASH, fibrosis, and cancer. As alternative routes of acetyl-CoA production for fatty acid synthesis, topics on glutamine and acetate metabolism are included. Further, studies on small compound inhibitors targeting lipid metabolism are discussed. Understanding reprogramming strategies in liver diseases, as well as the visualization of the metabolism reprogramming networks, could uncover novel therapeutic options. -
UC San Diego UC San Diego Electronic Theses and Dissertations
UC San Diego UC San Diego Electronic Theses and Dissertations Title Astrocyte activity modulated by S1P-signaling in a multiple sclerosis model Permalink https://escholarship.org/uc/item/2bn557vr Author Groves, Aran Publication Date 2015 Peer reviewed|Thesis/dissertation eScholarship.org Powered by the California Digital Library University of California UNIVERSITY OF CALIFORNIA, SAN DIEGO Astrocyte activity modulated by S1P-signaling in a multiple sclerosis model A dissertation submitted in partial satisfaction of the requirements for the degree Doctor of Philosophy in Neurosciences by Aran Groves Committee in charge: Professor Jerold Chun, Chair Professor JoAnn Trejo, Co-Chair Professor Jody Corey-Bloom Professor Mark Mayford Professor William Mobley 2015 The Dissertation of Aran Groves is approved, and it is acceptable in quality and form for publication on microfilm and electronically: Co-Chair Chair University of California, San Diego 2015 iii TABLE OF CONTENTS Signature Page ..................................................................................................... iii Table of Contents ................................................................................................. iv List of Figures ....................................................................................................... vi List of Tables ....................................................................................................... viii Acknowledgments ................................................................................................ -
Gadd45-Α and Metastatic Hepatocellular Carcinoma Cell Migration
MQP-BIO-DSA-2636 Gadd45-α and Metastatic Hepatocellular Carcinoma Cell Migration A Major Qualifying Project Report Submitted to the Faculty of the WORCESTER POLYTECHNIC INSTITUTE in partial fulfillment of the requirements for the Degree of Bachelor of Science in Biology and Biotechnology by _________________________ Sally Trabucco April 29, 2010 APPROVED: _________________________ _________________________ Brian Lewis, Ph.D. David Adams, Ph.D. Program in Gene Function and Expression Dept. Biology and Biotechnology Umass Medical Center WPI Project Advisor Major Advisor ABSTRACT Gadd45-α is a tumor suppressor protein identified by microarray analysis with a reduced expression in hepatocellular carcinoma (HCC) cell lines with high migration ability. The role of Gadd45-α in HCC migration was tested by stable shRNA knockdowns in a non-metastasizing murine cell line (BL185). The migration levels of the Gadd45-α knockdowns were significantly increased relative to the parental non-metastasizing line, indicating that decreased Gadd45-α expression is sufficient to promote increased cell migration. 2 TABLE OF CONTENTS Signature Page ………………………………………………………………………. 1 Abstract ……………………………………………………………………………… 2 Table of Contents ……………………………………………………………….…… 3 Acknowledgements ………………………………………………………………….. 4 Background ………………………………………………………………………….. 5 Project Purpose ………………………………………………………………………. 13 Methods ……………………………………………………………………………… 14 Results ……………………………………………………………………………….. 19 Discussion …………………………………………………………………………… 24 Bibliography ………………………………………………………………………… 26 3 ACKNOWLEDGEMENTS Throughout the course of this year-long project I have had help from many people without whom this project would not have been successful. The most important of these people is Dr. Brian Lewis for allowing me to join his lab for a year to complete this project. Even with a premium on space, Brian was always supportive of my project and my future goals, which provided the start of the friendly and instructive atmosphere I came to enjoy in his lab. -
Chapter 9 Cellular Respiration and Fermentation Lecture Outline
Chapter 9 Cellular Respiration and Fermentation Lecture Outline Overview: Life Is Work To perform their many tasks, as (open/closed?) systems, living cells require energy from outside sources. Energy enters most ecosystems as sunlight and leaves as heat. In contrast, the chemical elements essential for life are recycled. Photosynthesis generates oxygen and organic molecules that the mitochondria of eukaryotes (including plants and algae) use as fuel for cellular respiration. Cells harvest the chemical energy stored in organic molecules and use it to regenerate ATP, the molecule that drives most cellular work. Concept 9.1 Catabolic pathways yield energy by oxidizing organic fuels Catabolic/Anabolic? metabolic pathways release energy stored in complex organic molecules. o Electron transfer plays a major role in these pathways. One type of catabolic process, ________________, leads to the partial degradation of sugars without the use of oxygen. A more efficient and widespread catabolic process, ____________ respiration, consumes oxygen as a reactant to complete the breakdown of a variety of organic molecules. o Some prokaryotes use compounds other than oxygen as reactants in a similar process called anaerobic respiration. Aerobic respiration is similar in broad principle to the combustion of gasoline in an automobile engine after oxygen is mixed with hydrocarbon fuel. o Food provides the fuel for respiration. The exhaust is carbon dioxide and water. Carbohydrates, fats, and proteins can all be used as the fuel, but it is most useful to consider glucose: C6H12O6 + 6O2 __CO2 + __H2O + energy (_______ + heat) The catabolism of glucose is (endergonic/exergonic?), with G = −686 kcal per mole of glucose. -
And/Or HCV-Associated Hepatocellular Carcinoma Cells Using Expressed Sequence Tags
315-327 28/6/06 12:53 Page 315 INTERNATIONAL JOURNAL OF ONCOLOGY 29: 315-327, 2006 315 Gene expression profiling of human HBV- and/or HCV-associated hepatocellular carcinoma cells using expressed sequence tags SUN YOUNG YOON1, JEONG-MIN KIM1, JUNG-HWA OH1, YEO-JIN JEON1, DONG-SEOK LEE1, JOO HEON KIM3, JONG YOUNG CHOI4, BYUNG MIN AHN5, SANGSOO KIM2, HYANG-SOOK YOO1, YONG SUNG KIM1 and NAM-SOON KIM1 1Laboratory of Human Genomics, Genome Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 305-333; 2Department of Bioinformatics and Life Science, Soongsil University, Seoul; 3Department of Pathology, Eulji University School of Medicine, Daejeon 301-832; 4Department of Internal Medicine, Catholic University of Medicine, 137-701 Seoul; 5Department of Internal Medicine, Catholic University of Medicine, Daejeon 301-723, Korea Received November 14, 2005; Accepted January 19, 2006 Abstract. Liver cancer is one of the leading causes of cancer expressed at high levels in HCC. Using an analysis of EST death worldwide. To identify novel target genes that are frequency, the newly identified genes, especially ANXA2, related to liver carcinogenesis, we examined new genes represent potential biomarkers for HCC and useful targets for that are differentially expressed in human hepatocellular elucidating the molecular mechanisms associated with HCC carcinoma (HCC) cell lines and tissues based on the expressed involving virological etiology. sequence tag (EST) frequency. Eleven libraries were constructed from seven HCC cell lines and three normal liver Introduction tissue samples obtained from Korean patients. An analysis of gene expression profiles for HCC was performed using the Liver cancer is one of the leading causes of cancer death frequency of ESTs obtained from these cDNA libraries. -
Divergent Cytochrome C Maturation System in Kinetoplastid Protists
This is a repository copy of Divergent cytochrome c maturation system in kinetoplastid protists. White Rose Research Online URL for this paper: https://eprints.whiterose.ac.uk/172747/ Version: Accepted Version Article: Belbelazi, Asma, Neish, Rachel, Carr, Martin et al. (2 more authors) (Accepted: 2021) Divergent cytochrome c maturation system in kinetoplastid protists. MBio. ISSN 2150-7511 (In Press) Reuse Items deposited in White Rose Research Online are protected by copyright, with all rights reserved unless indicated otherwise. They may be downloaded and/or printed for private study, or other acts as permitted by national copyright laws. The publisher or other rights holders may allow further reproduction and re-use of the full text version. This is indicated by the licence information on the White Rose Research Online record for the item. Takedown If you consider content in White Rose Research Online to be in breach of UK law, please notify us by emailing [email protected] including the URL of the record and the reason for the withdrawal request. [email protected] https://eprints.whiterose.ac.uk/ 1 Divergent cytochrome c maturation system in kinetoplastid protists 2 3 Asma Belbelazia, Rachel Neishb, Martin Carra, Jeremy C. Mottramb#, and Michael L. Gingera# 4 aSchool of Applied Sciences, University of Huddersfield, Huddersfield, UK 5 bYork Biomedical Research Institute and Department of Biology, University of York, York, UK 6 7 Running head: kinetoplastid cytochrome c maturation 8 9 #Address correspondence to Michael L. Ginger, [email protected] or Jeremy C. Mottram, 10 [email protected] 11 12 Asma Belbelazi and Rachel Neish contributed equally to this work. -
Translational Profiling Reveals the Transcriptome of Leptin Receptor Neurons and Its Regulation by Leptin
TRANSLATIONAL PROFILING REVEALS THE TRANSCRIPTOME OF LEPTIN RECEPTOR NEURONS AND ITS REGULATION BY LEPTIN by Margaret B. Allison A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy (Molecular and Integrative Physiology) In the University of Michigan 2015 Doctoral Committee: Professor Martin G. Myers Jr., Chair Associate Professor Carol F. Elias Professor Malcolm J. Low Professor Suzanne Moenter Professor Audrey Seasholtz Before you leave these portals To meet less fortunate mortals There's just one final message I would give to you: You all have learned reliance On the sacred teachings of science So I hope, through life, you never will decline In spite of philistine defiance To do what all good scientists do: Experiment! -- Cole Porter There is no cure for curiosity. -- unknown © Margaret Brewster Allison 2015 ACKNOWLEDGEMENTS If it takes a village to raise a child, it takes a research university to raise a graduate student. There are many people who have supported me over the past six years at Michigan, and it is hard to imagine pursuing my PhD without them. First and foremost among all the people I need to thank is my mentor, Martin. Nothing I might say here would ever suffice to cover the depth and breadth of my gratitude to him. Without his patience, his insight, and his at times insufferably positive outlook, I don’t know where I would be today. Martin supported my intellectual curiosity, honed my scientific inquiry, and allowed me to do some really fun research in his lab. It was a privilege and a pleasure to work for him and with him. -
Human Mitochondrial Holocytochrome C Synthasets Heme Binding, Maturation Determinants, and Complex Formation with Cytochrome C
Human mitochondrial holocytochrome c synthase’s PNAS PLUS heme binding, maturation determinants, and complex formation with cytochrome c Brian San Francisco, Eric C. Bretsnyder, and Robert G. Kranz1 Department of Biology, Washington University in St. Louis, St. Louis, MO 63130 Edited by Sabeeha Sabanali Merchant, University of California, Los Angeles, CA, and approved October 16, 2012 (received for review August 10, 2012) Proper functioning of the mitochondrion requires the orchestrated cytochromes in mitochondria: cytochrome c maturation (CCM) assembly of respiratory complexes with their cofactors. Cyto- (12–15) and cytochrome c heme lyase, also called “holocytochrome chrome c, an essential electron carrier in mitochondria and a critical c synthase” (HCCS, the term used in this paper) (16, 17). The component of the apoptotic pathway, contains a heme cofactor CCM system is composed of eight or nine integral membrane covalently attached to the protein at a conserved CXXCH motif. proteins and functions in the mitochondrial inner membrane Although it has been known for more than two decades that heme of plants and some protozoa and in the cytoplasmic membranes of attachment requires the mitochondrial protein holocytochrome c alpha- and gamma-proteobacteria (18). Most mitochondria (e.g., fi synthase (HCCS), the mechanism remained unknown. We puri ed those of fungi, invertebrates, vertebrates, and some protozoa) use membrane-bound human HCCS with endogenous heme and in HCCS for synthesis of cytochrome c. In fungi, two related c complex with its cognate human apocytochrome . Spectroscopic homologs, HCCS and HCC S, are dedicated to maturation of analyses of HCCS alone and complexes of HCCS with site-directed 1 cytochrome c and cytochrome c , respectively (19, 20), whereas in variants of cytochrome c revealed the fundamental steps of heme 1 animals a single HCCS enzyme is active toward both cytochrome c attachment and maturation.