Lncrna MNX1-AS1 Promotes Progression of Intrahepatic
Total Page:16
File Type:pdf, Size:1020Kb

Load more
Recommended publications
-
The Prognostic Utility and Clinical Outcomes of MNX1-AS1 Expression in Cancers: a Systematic Review and Meta-Analysis
The prognostic utility and clinical outcomes of MNX1-AS1 expression in cancers: a systematic review and meta-analysis Juan Li The rst aliated hospital, college of medicine, zhejiang university https://orcid.org/0000-0002-0121-7098 Wen Jin The rst aliated hospital, college of medicine, zhejiang university Zhengyu Zhang The rst aliated hospital, college of medicine, zhejiang university Jingjing Chu The rst aliated hospital, college of medicine, zhejiang university Hui Yang The rst aliated hospital, college of meicine, zhejiang university Chang Li the rst aliated hospital, college of medicine, zhejiang university Ruiyin Dong The rst aliated hospital, college of medicine, zhejiang university Cailian Zhao ( [email protected] ) https://orcid.org/0000-0001-8337-0610 Primary research Keywords: Long non-coding RNA, MNX1-AS1, Cancer, Prognosis Posted Date: March 25th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-19089/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/9 Abstract Background: Recently, emerging studies have identied that MNX1-AS1 highly expressed among variety of cancers and related with worse prognosis of cancer patients. The purpose of this study was to evaluate the relationship between MNX1-AS1 expression with clinical features and prognosis in different cancers. Methods: In this study, we searched the Web of Science, PubMed, CNKI, and Wanfang databases to nd relevant studies of MNX1-AS1. Pooled hazard ratios (HRs) and odds ratios (ORs) with 95% condence intervals (CIs) were applied to explore the prognostic and clinical signicance of MNX1-AS1. Results: A total of 9 literatures were included in this study, including 882 cancer patients. -
Autism Multiplex Family with 16P11.2P12.2 Microduplication Syndrome in Monozygotic Twins and Distal 16P11.2 Deletion in Their Brother
European Journal of Human Genetics (2012) 20, 540–546 & 2012 Macmillan Publishers Limited All rights reserved 1018-4813/12 www.nature.com/ejhg ARTICLE Autism multiplex family with 16p11.2p12.2 microduplication syndrome in monozygotic twins and distal 16p11.2 deletion in their brother Anne-Claude Tabet1,2,3,4, Marion Pilorge2,3,4, Richard Delorme5,6,Fre´de´rique Amsellem5,6, Jean-Marc Pinard7, Marion Leboyer6,8,9, Alain Verloes10, Brigitte Benzacken1,11,12 and Catalina Betancur*,2,3,4 The pericentromeric region of chromosome 16p is rich in segmental duplications that predispose to rearrangements through non-allelic homologous recombination. Several recurrent copy number variations have been described recently in chromosome 16p. 16p11.2 rearrangements (29.5–30.1 Mb) are associated with autism, intellectual disability (ID) and other neurodevelopmental disorders. Another recognizable but less common microdeletion syndrome in 16p11.2p12.2 (21.4 to 28.5–30.1 Mb) has been described in six individuals with ID, whereas apparently reciprocal duplications, studied by standard cytogenetic and fluorescence in situ hybridization techniques, have been reported in three patients with autism spectrum disorders. Here, we report a multiplex family with three boys affected with autism, including two monozygotic twins carrying a de novo 16p11.2p12.2 duplication of 8.95 Mb (21.28–30.23 Mb) characterized by single-nucleotide polymorphism array, encompassing both the 16p11.2 and 16p11.2p12.2 regions. The twins exhibited autism, severe ID, and dysmorphic features, including a triangular face, deep-set eyes, large and prominent nasal bridge, and tall, slender build. The eldest brother presented with autism, mild ID, early-onset obesity and normal craniofacial features, and carried a smaller, overlapping 16p11.2 microdeletion of 847 kb (28.40–29.25 Mb), inherited from his apparently healthy father. -
Leveraging Mouse Chromatin Data for Heritability Enrichment Informs Common Disease Architecture and Reveals Cortical Layer Contributions to Schizophrenia
Downloaded from genome.cshlp.org on October 5, 2021 - Published by Cold Spring Harbor Laboratory Press Research Leveraging mouse chromatin data for heritability enrichment informs common disease architecture and reveals cortical layer contributions to schizophrenia Paul W. Hook1 and Andrew S. McCallion1,2,3 1McKusick-Nathans Department of Genetic Medicine, 2Department of Comparative and Molecular Pathobiology, 3Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA Genome-wide association studies have implicated thousands of noncoding variants across common human phenotypes. However, they cannot directly inform the cellular context in which disease-associated variants act. Here, we use open chro- matin profiles from discrete mouse cell populations to address this challenge. We applied stratified linkage disequilibrium score regression and evaluated heritability enrichment in 64 genome-wide association studies, emphasizing schizophrenia. We provide evidence that mouse-derived human open chromatin profiles can serve as powerful proxies for difficult to ob- tain human cell populations, facilitating the illumination of common disease heritability enrichment across an array of hu- man phenotypes. We demonstrate that signatures from discrete subpopulations of cortical excitatory and inhibitory neurons are significantly enriched for schizophrenia heritability with maximal enrichment in cortical layer V excitatory neu- rons. We also show that differences between schizophrenia and bipolar disorder are concentrated in excitatory neurons in cortical layers II-III, IV, and V, as well as the dentate gyrus. Finally, we leverage these data to fine-map variants in 177 schiz- ophrenia loci nominating variants in 104/177. We integrate these data with transcription factor binding site, chromatin in- teraction, and validated enhancer data, placing variants in the cellular context where they may modulate risk. -
Watsonjn2018.Pdf (1.780Mb)
UNIVERSITY OF CENTRAL OKLAHOMA Edmond, Oklahoma Department of Biology Investigating Differential Gene Expression in vivo of Cardiac Birth Defects in an Avian Model of Maternal Phenylketonuria A THESIS SUBMITTED TO THE GRADUATE FACULTY In partial fulfillment of the requirements For the degree of MASTER OF SCIENCE IN BIOLOGY By Jamie N. Watson Edmond, OK June 5, 2018 J. Watson/Dr. Nikki Seagraves ii J. Watson/Dr. Nikki Seagraves Acknowledgements It is difficult to articulate the amount of gratitude I have for the support and encouragement I have received throughout my master’s thesis. Many people have added value and support to my life during this time. I am thankful for the education, experience, and friendships I have gained at the University of Central Oklahoma. First, I would like to thank Dr. Nikki Seagraves for her mentorship and friendship. I lucked out when I met her. I have enjoyed working on this project and I am very thankful for her support. I would like thank Thomas Crane for his support and patience throughout my master’s degree. I would like to thank Dr. Shannon Conley for her continued mentorship and support. I would like to thank Liz Bullen and Dr. Eric Howard for their training and help on this project. I would like to thank Kristy Meyer for her friendship and help throughout graduate school. I would like to thank my committee members Dr. Robert Brennan and Dr. Lilian Chooback for their advisement on this project. Also, I would like to thank the biology faculty and staff. I would like to thank the Seagraves lab members: Jailene Canales, Kayley Pate, Mckayla Muse, Grace Thetford, Kody Harvey, Jordan Guffey, and Kayle Patatanian for their hard work and support. -
A Computational Approach for Defining a Signature of Β-Cell Golgi Stress in Diabetes Mellitus
Page 1 of 781 Diabetes A Computational Approach for Defining a Signature of β-Cell Golgi Stress in Diabetes Mellitus Robert N. Bone1,6,7, Olufunmilola Oyebamiji2, Sayali Talware2, Sharmila Selvaraj2, Preethi Krishnan3,6, Farooq Syed1,6,7, Huanmei Wu2, Carmella Evans-Molina 1,3,4,5,6,7,8* Departments of 1Pediatrics, 3Medicine, 4Anatomy, Cell Biology & Physiology, 5Biochemistry & Molecular Biology, the 6Center for Diabetes & Metabolic Diseases, and the 7Herman B. Wells Center for Pediatric Research, Indiana University School of Medicine, Indianapolis, IN 46202; 2Department of BioHealth Informatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202; 8Roudebush VA Medical Center, Indianapolis, IN 46202. *Corresponding Author(s): Carmella Evans-Molina, MD, PhD ([email protected]) Indiana University School of Medicine, 635 Barnhill Drive, MS 2031A, Indianapolis, IN 46202, Telephone: (317) 274-4145, Fax (317) 274-4107 Running Title: Golgi Stress Response in Diabetes Word Count: 4358 Number of Figures: 6 Keywords: Golgi apparatus stress, Islets, β cell, Type 1 diabetes, Type 2 diabetes 1 Diabetes Publish Ahead of Print, published online August 20, 2020 Diabetes Page 2 of 781 ABSTRACT The Golgi apparatus (GA) is an important site of insulin processing and granule maturation, but whether GA organelle dysfunction and GA stress are present in the diabetic β-cell has not been tested. We utilized an informatics-based approach to develop a transcriptional signature of β-cell GA stress using existing RNA sequencing and microarray datasets generated using human islets from donors with diabetes and islets where type 1(T1D) and type 2 diabetes (T2D) had been modeled ex vivo. To narrow our results to GA-specific genes, we applied a filter set of 1,030 genes accepted as GA associated. -
Genome-Wide Rnai Screening Identifies Human Proteins with A
RESOURCES Genome-wide RNAi screening identifies human proteins with a regulatory function in the early secretory pathway Jeremy C. Simpson1,7, Brigitte Joggerst2, Vibor Laketa2, Fatima Verissimo2, Cihan Cetin2, Holger Erfle2,6, Mariana G. Bexiga1, Vasanth R. Singan1, Jean-Karim Hériché3, Beate Neumann3, Alvaro Mateos2, Jonathon Blake4, Stephanie Bechtel5, Vladimir Benes4, Stefan Wiemann5, Jan Ellenberg2,3 and Rainer Pepperkok2,7 The secretory pathway in mammalian cells has evolved to facilitate the transfer of cargo molecules to internal and cell surface membranes. Use of automated microscopy-based genome-wide RNA interference screens in cultured human cells allowed us to identify 554 proteins influencing secretion. Cloning, fluorescent-tagging and subcellular localization analysis of 179 of these proteins revealed that more than two-thirds localize to either the cytoplasm or membranes of the secretory and endocytic pathways. The depletion of 143 of them resulted in perturbations in the organization of the COPII and/or COPI vesicular coat complexes of the early secretory pathway, or the morphology of the Golgi complex. Network analyses revealed a so far unappreciated link between early secretory pathway function, small GTP-binding protein regulation, actin cytoskeleton organization and EGF-receptor-mediated signalling. This work provides an important resource for an integrative understanding of global cellular organization and regulation of the secretory pathway in mammalian cells. Within higher eukaryotic cells membrane traffic pathways connect the Extensive efforts over many years have revealed a significant number various membrane-bounded organelles, thereby ensuring that they of regulators associated with the secretory pathway. Early biochemical retain the correct complement of proteins and lipids to maintain approaches to identify individual machinery components have started cellular homeostasis. -
Identification of Genetic Variants in CFAP221 As a Cause of Primary Ciliary Dyskinesia
HHS Public Access Author manuscript Author ManuscriptAuthor Manuscript Author J Hum Genet Manuscript Author . Author manuscript; Manuscript Author available in PMC 2020 April 21. Published in final edited form as: J Hum Genet. 2020 January ; 65(2): 175–180. doi:10.1038/s10038-019-0686-1. Identification of Genetic Variants in CFAP221 as a Cause of Primary Ciliary Dyskinesia Ximena M. Bustamante-Marin1,#, Adam Shapiro2,#, Patrick R. Sears1, Wu-Lin Charng3, Donald F. Conrad3,4, Margaret W. Leigh5, Michael R. Knowles1, Lawrence E. Ostrowski1,*, Maimoona A. Zariwala6,* 1Department of Medicine, Marsico Lung Institute, University of North Carolina, Chapel Hill, North Carolina., NC 27599, USA. 2Department of Pediatrics, Division of Pediatric Respiratory Medicine, McGill University Health Centre Research Institute, Montreal, Quebec. 3Department of Genetics and Psychiatry, Washington University School of Medicine, St. Louis, MO 63110, USA 4Division of Genetics, Oregon National Primate Research Center, Beaverton, OR, 97006, USA 5Department of Pediatrics, Marsico Lung Institute, University of North Carolina, Chapel Hill, North Carolina, 27599. 6Department of Pathology and Laboratory Medicine, Marsico Lung Institute University of North Carolina, Chapel Hill, NC 27599, USA. Abstract Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use:http://www.nature.com/authors/editorial_policies/license.html#terms * Corresponding Author: Lawrence E. Ostrowski, 104 Manning Dr Room 6021, [email protected], Phone: 919-8437177, Maimoona A. Zariwala, 7219 A Marsico Hall, [email protected], Phone: 919-966-7050, Fax: 919-966-5178. #Ximena M. Bustamante-Marin and Adam Shapiro are co-first authors. -
STAT3 Promotes Chronic Lymphocytic Leukemia Progression Through Upregulating SMYD3 Expression
Basic research Haematology STAT3 promotes chronic lymphocytic leukemia progression through upregulating SMYD3 expression Wei Ma1, Yingying Zhang2, Yu Qi3, Shidong Guo4 1Hematology and Oncology Department, Dongzhimen Hospital, Beijing University Corresponding author: of Chinese Medicine, Beijing, China Shidong Guo 2Scientific Research Department, Dongzhimen Hospital, Beijing University of Chinese Emergency Department Medicine, Beijing, China China-Japan 3Nursing Department, Dongzhimen Hospital, Beijing University of Chinese Medicine, Friendship Hospital Beijing, China No. 2 Sakura East St 4Emergency Department, China-Japan Friendship Hospital, Beijing, China Chaoyang District Beijing 100029, China Submitted: 3 May 2018 Phone/fax: Accepted: 14 July 2018 +86 010 84205185 E-mail: [email protected] Arch Med Sci 2019; 15 (5): 1163–1175 DOI: https://doi.org/10.5114/aoms.2018.77733 Copyright © 2018 Termedia &Banach Abstract Introduction: This study was designed to investigate the roles of STAT3 and SMYD3 in chronic lymphocytic leukemia and the regulatory relationship be- tween STAT3 and SMYD3 in chronic lymphocytic leukemia. Material and methods: The expression of STAT3 and SMYD3 was deter- mined by RT-qPCR and western blot in chronic lymphocytic leukemia sam- ples and cells (MEC1, CLL). Small interfering RNA was used to knock down the mRNA level of STAT3 and the pcDNA3.1-SMYD3 plasmid was used to construct a SMYD3 overexpression model. An MTT assay was performed to evaluate cell proliferation. A transwell assay was used to detect cell invasion ability. Afterwards, a luciferase reporter assay and chromatin immunopre- cipitation experiment (ChIP assay) were applied to confirm the correlation between STAT3 and SMYD3. Results: STAT3 was highly expressed in chronic lymphocytic leukemia mono- nuclear cells and cancerous cell lines. -
Aneuploidy: Using Genetic Instability to Preserve a Haploid Genome?
Health Science Campus FINAL APPROVAL OF DISSERTATION Doctor of Philosophy in Biomedical Science (Cancer Biology) Aneuploidy: Using genetic instability to preserve a haploid genome? Submitted by: Ramona Ramdath In partial fulfillment of the requirements for the degree of Doctor of Philosophy in Biomedical Science Examination Committee Signature/Date Major Advisor: David Allison, M.D., Ph.D. Academic James Trempe, Ph.D. Advisory Committee: David Giovanucci, Ph.D. Randall Ruch, Ph.D. Ronald Mellgren, Ph.D. Senior Associate Dean College of Graduate Studies Michael S. Bisesi, Ph.D. Date of Defense: April 10, 2009 Aneuploidy: Using genetic instability to preserve a haploid genome? Ramona Ramdath University of Toledo, Health Science Campus 2009 Dedication I dedicate this dissertation to my grandfather who died of lung cancer two years ago, but who always instilled in us the value and importance of education. And to my mom and sister, both of whom have been pillars of support and stimulating conversations. To my sister, Rehanna, especially- I hope this inspires you to achieve all that you want to in life, academically and otherwise. ii Acknowledgements As we go through these academic journeys, there are so many along the way that make an impact not only on our work, but on our lives as well, and I would like to say a heartfelt thank you to all of those people: My Committee members- Dr. James Trempe, Dr. David Giovanucchi, Dr. Ronald Mellgren and Dr. Randall Ruch for their guidance, suggestions, support and confidence in me. My major advisor- Dr. David Allison, for his constructive criticism and positive reinforcement. -
A Molecular Switch for Photoperiod Responsiveness in Mammals
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector Current Biology 20, 2193–2198, December 21, 2010 ª2010 Elsevier Ltd All rights reserved DOI 10.1016/j.cub.2010.10.048 Report A Molecular Switch for Photoperiod Responsiveness in Mammals Hugues Dardente,1,* Cathy A. Wyse,1 Mike J. Birnie,1 type 2 thyroid hormone deiodinase (Dio2) expression in the Sandrine M. Dupre´,2 Andrew S.I. Loudon,2 hypothalamus [6]. This enzyme is a gatekeeper for the effects Gerald A. Lincoln,3 and David G. Hazlerigg1,* of thyroid hormone in the hypothalamus, controlling the avail- 1Institute of Biological and Environmental Sciences, Zoology ability of the active form of thyroid hormone, triiodothyronine, Building, Tillydrone Avenue, University of Aberdeen, and dictating the expression of summer phenotypes [7, 8]. Aberdeen AB24 2TZ, UK A unique feature of mammalian seasonal biology [2–5] is that 2Faculty of Life Sciences, University of Manchester, these effects of day length on PT function depend on the pineal Manchester M13 9PT, UK hormone melatonin, which acts via a high density of melatonin 3Queen’s Medical Research Institute, University of Edinburgh, receptors localized in the PT [ 9, 10]. Melatonin is a circadian Edinburgh EH16 4SB, UK signal, with a nocturnal waveform proportional to the length of the night, and consequently, in the PT, melatonin controls the rhythmical expression of multiple transcription factors Summary implicated in circadian function [11–15]. Hence, we hypothe- sized that photoperiodic effects on TSHb expression in the Seasonal synchronization based on day length (photope- PT are initiated through melatonin’s effects on circadian tran- riod) allows organisms to anticipate environmental change. -
Structural and Numerical Changes of Chromosome X in Patients with Esophageal Atresia
European Journal of Human Genetics (2014) 22, 1077–1084 & 2014 Macmillan Publishers Limited All rights reserved 1018-4813/14 www.nature.com/ejhg ARTICLE Structural and numerical changes of chromosome X in patients with esophageal atresia Erwin Brosens*,1,2,5, Elisabeth M de Jong1,2,5, Tahsin Stefan Barakat3, Bert H Eussen1, Barbara D’haene4, Elfride De Baere4, Hannah Verdin4, Pino J Poddighe1, Robert-Jan Galjaard1, Joost Gribnau3, Alice S Brooks1, Dick Tibboel2 and Annelies de Klein1 Esophageal atresia with or without tracheoesophageal fistula (EA/TEF) is a relatively common birth defect often associated with additional congenital anomalies such as vertebral, anal, cardiovascular, renal and limb defects, the so-called VACTERL association. Yet, little is known about the causal genetic factors. Rare case reports of gastrointestinal anomalies in children with triple X syndrome prompted us to survey the incidence of structural and numerical changes of chromosome X in patients with EA/TEF. All available (n ¼ 269) karyotypes of our large (321) EA/TEF patient cohort were evaluated for X-chromosome anomalies. If sufficient DNA material was available, we determined genome-wide copy number profiles with SNP array and identified subtelomeric aberrations on the difficult to profile PAR1 region using telomere-multiplex ligation-dependent probe amplification. In addition, we investigated X-chromosome inactivation (XCI) patterns and mode of inheritance of detected aberrations in selected patients. Three EA/TEF patients had an additional maternally inherited X chromosome. These three female patients had normal random XCI patterns. Two male EA/TEF patients had small inherited duplications of the XY-linked SHOX (Short stature HOmeoboX-containing) locus. -
CHML Promotes Liver Cancer Metastasis by Facilitating Rab14 Recycle
ARTICLE https://doi.org/10.1038/s41467-019-10364-0 OPEN CHML promotes liver cancer metastasis by facilitating Rab14 recycle Tian-Wei Chen1,2,3, Fen-Fen Yin1,2, Yan-Mei Yuan1,2, Dong-Xian Guan1, Erbin Zhang1,2, Feng-Kun Zhang1,2, Hao Jiang1,2, Ning Ma1,2, Jing-Jing Wang1, Qian-Zhi Ni1,2, Lin Qiu1, Jing Feng3, Xue-Li Zhang3, Ying Bao4, Kang Wang5, Shu-Qun Cheng5, Xiao-Fan Wang6, Xiang Wang7, Jing-Jing Li1,2 & Dong Xie1,2,8,9 Metastasis-associated recurrence is the major cause of poor prognosis in hepatocellular 1234567890():,; carcinoma (HCC), however, the underlying mechanisms remain largely elusive. In this study, we report that expression of choroideremia-like (CHML) is increased in HCC, associated with poor survival, early recurrence and more satellite nodules in HCC patients. CHML promotes migration, invasion and metastasis of HCC cells, in a Rab14-dependent manner. Mechanism study reveals that CHML facilitates constant recycling of Rab14 by escorting Rab14 to the membrane. Furthermore, we identify several metastasis regulators as cargoes carried by Rab14-positive vesicles, including Mucin13 and CD44, which may contribute to metastasis- promoting effects of CHML. Altogether, our data establish CHML as a potential promoter of HCC metastasis, and the CHML-Rab14 axis may be a promising therapeutic target for HCC. 1 CAS Key Laboratory of Nutrition, Metabolism and Food Safety, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Xuhui district 200031, China. 2 University of Chinese Academy of Sciences, Chinese Academy of Sciences, Xuhui district 200031, China. 3 Department of General Surgery, Fengxian Hospital Affiliated to Southern Medical University, 6600 Nanfeng Road, Shanghai 201499, China.