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Individualized Systems Medicine Strategy to Tailor Treatments for Patients with Chemorefractory Acute Myeloid Leukemia
Published OnlineFirst September 20, 2013; DOI: 10.1158/2159-8290.CD-13-0350 RESEARCH ARTICLE Individualized Systems Medicine Strategy to Tailor Treatments for Patients with Chemorefractory Acute Myeloid Leukemia Tea Pemovska 1 , Mika Kontro 2 , Bhagwan Yadav 1 , Henrik Edgren 1 , Samuli Eldfors1 , Agnieszka Szwajda 1 , Henrikki Almusa 1 , Maxim M. Bespalov 1 , Pekka Ellonen 1 , Erkki Elonen 2 , Bjørn T. Gjertsen5 , 6 , Riikka Karjalainen 1 , Evgeny Kulesskiy 1 , Sonja Lagström 1 , Anna Lehto 1 , Maija Lepistö1 , Tuija Lundán 3 , Muntasir Mamun Majumder 1 , Jesus M. Lopez Marti 1 , Pirkko Mattila 1 , Astrid Murumägi 1 , Satu Mustjoki 2 , Aino Palva 1 , Alun Parsons 1 , Tero Pirttinen 4 , Maria E. Rämet 4 , Minna Suvela 1 , Laura Turunen 1 , Imre Västrik 1 , Maija Wolf 1 , Jonathan Knowles 1 , Tero Aittokallio 1 , Caroline A. Heckman 1 , Kimmo Porkka 2 , Olli Kallioniemi 1 , and Krister Wennerberg 1 ABSTRACT We present an individualized systems medicine (ISM) approach to optimize cancer drug therapies one patient at a time. ISM is based on (i) molecular profi ling and ex vivo drug sensitivity and resistance testing (DSRT) of patients’ cancer cells to 187 oncology drugs, (ii) clinical implementation of therapies predicted to be effective, and (iii) studying consecutive samples from the treated patients to understand the basis of resistance. Here, application of ISM to 28 samples from patients with acute myeloid leukemia (AML) uncovered fi ve major taxonomic drug-response sub- types based on DSRT profi les, some with distinct genomic features (e.g., MLL gene fusions in subgroup IV and FLT3 -ITD mutations in subgroup V). Therapy based on DSRT resulted in several clinical responses. -
Mirna‑26A‑5P and Mir‑26B‑5P Inhibit the Proliferation of Bladder Cancer Cells by Regulating PDCD10
ONCOLOGY REPORTS 40: 3523-3532, 2018 miRNA‑26a‑5p and miR‑26b‑5p inhibit the proliferation of bladder cancer cells by regulating PDCD10 KE WU1*, XING-YU MU1*, JUN-TAO JIANG1, MING-YUE TAN1, REN-JIE WANG1, WEN-JIE ZHOU2, XIANG WANG1, YIN-YAN HE3, MING-QING LI2 and ZHI-HONG LIU1 1Department of Urology, Shanghai General Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200080; 2Laboratory for Reproductive Immunology, Hospital of Obstetrics and Gynecology, Fudan University, Shanghai 200011; 3Department of Obstetrics and Gynecology, Shanghai General Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200080, P.R. China Received October 11, 2017; Accepted September 4, 2018 DOI: 10.3892/or.2018.6734 Abstract. MicroRNA (miR)-26a-5p and miR-26b-5p consis- and miR-26b-5p were pivotal regulators in BC progression tently play an antitumor role in many types of cancers, but the by targeting the proliferation-related protein, PDCD10. The underlying mechanism remains unclear in bladder cancer (BC). miR-26-5p/PDCD10 interaction may provide important In the present study, we found that, in BC tissues, the levels of insight into the pathway of BC progression and present novel miR-26a-5p and miR-26b-5p were lower than in paired normal opportunities for future diagnosis and treatment strategies, tissues. The upregulation of miR‑26‑5p significantly inhibited especially for patients with high levels of PDCD10. the proliferation of BC cell lines (T24 and 5637). Bioinformatics analysis indicated that Programmed Cell Death 10 (PDCD10) Introduction was the downstream target gene of miR-26a-5p/miR-26b-5p, and this was ascertained by western blotting and quantitative Bladder cancer (BC) is one of the most important urinary real-time reverse transcription PCR (RT-qPCR). -
Cerebral Cavernous Malformations: from Genes to Proteins to Disease
See the corresponding editorial in this issue, pp 119–121. J Neurosurg 116:122–132, 2012 Cerebral cavernous malformations: from genes to proteins to disease Clinical article DANIEL D. CAVALCANTI, M.D., M. YASHAR S. KALANI, M.D., PH.D., NIKOLAY L. MARTIROSYAN, M.D., JUSTIN EALES, B.S., ROBERT F. SPETZLER, M.D., AND MARK C. PREUL, M.D. Division of Neurological Surgery, Barrow Neurological Institute, St. Joseph’s Hospital and Medical Center, Phoenix, Arizona Over the past half century molecular biology has led to great advances in our understanding of angio- and vas- culogenesis and in the treatment of malformations resulting from these processes gone awry. Given their sporadic and familial distribution, their developmental and pathological link to capillary telangiectasias, and their observed chromosomal abnormalities, cerebral cavernous malformations (CCMs) are regarded as akin to cancerous growths. Although the exact pathological mechanisms involved in the formation of CCMs are still not well understood, the identification of 3 genetic loci has begun to shed light on key developmental pathways involved in CCM pathogen- esis. Cavernous malformations can occur sporadically or in an autosomal dominant fashion. Familial forms of CCMs have been attributed to mutations at 3 different loci implicated in regulating important processes such as proliferation and differentiation of angiogenic precursors and members of the apoptotic machinery. These processes are important for the generation, maintenance, and pruning of every vessel in the body. In this review the authors highlight the lat- est discoveries pertaining to the molecular genetics of CCMs, highlighting potential new therapeutic targets for the treatment of these lesions. -
STRIPAK Complexes in Cell Signaling and Cancer
Oncogene (2016), 1–9 © 2016 Macmillan Publishers Limited All rights reserved 0950-9232/16 www.nature.com/onc REVIEW STRIPAK complexes in cell signaling and cancer Z Shi1,2, S Jiao1 and Z Zhou1,3 Striatin-interacting phosphatase and kinase (STRIPAK) complexes are striatin-centered multicomponent supramolecular structures containing both kinases and phosphatases. STRIPAK complexes are evolutionarily conserved and have critical roles in protein (de) phosphorylation. Recent studies indicate that STRIPAK complexes are emerging mediators and regulators of multiple vital signaling pathways including Hippo, MAPK (mitogen-activated protein kinase), nuclear receptor and cytoskeleton remodeling. Different types of STRIPAK complexes are extensively involved in a variety of fundamental biological processes ranging from cell growth, differentiation, proliferation and apoptosis to metabolism, immune regulation and tumorigenesis. Growing evidence correlates dysregulation of STRIPAK complexes with human diseases including cancer. In this review, we summarize the current understanding of the assembly and functions of STRIPAK complexes, with a special focus on cell signaling and cancer. Oncogene advance online publication, 15 February 2016; doi:10.1038/onc.2016.9 INTRODUCTION in the central nervous system and STRN4 is mostly abundant in Recent proteomic studies identified a group of novel multi- the brain and lung, whereas STRN3 is ubiquitously expressed in 5–9 component complexes named striatin (STRN)-interacting phos- almost all tissues. STRNs share a -
Identification of Endogenous Adenomatous Polyposis Coli Interaction Partners and B-Catenin– Independent Targets by Proteomics
Published OnlineFirst June 3, 2019; DOI: 10.1158/1541-7786.MCR-18-1154 Cancer "-omics" Molecular Cancer Research Identification of Endogenous Adenomatous Polyposis Coli Interaction Partners and b-Catenin– Independent Targets by Proteomics Olesja Popow1,2,3,Joao~ A. Paulo2, Michael H. Tatham4, Melanie S. Volk3, Alejandro Rojas-Fernandez5, Nicolas Loyer3, Ian P. Newton3, Jens Januschke3, Kevin M. Haigis1,6, and Inke Nathke€ 3 Abstract Adenomatous Polyposis Coli (APC) is the most frequently tion between endogenous MINK1 and APC and further mutated gene in colorectal cancer. APC negatively regulates confirmed the negative, and b-catenin–independent, regu- the Wnt signaling pathway by promoting the degradation of lation of MINK1 by APC. Increased Mink1/Msn levels were b-catenin, but the extent to which APC exerts Wnt/b-cate- also observed in mouse intestinal tissue and Drosophila nin–independent tumor-suppressive activity is unclear. To follicular cells expressing mutant Apc/APC when compared identify interaction partners and b-catenin–independent with wild-type tissue/cells. Collectively, our results highlight targets of endogenous, full-length APC, we applied label- the extent and importance of Wnt-independent APC func- free and multiplexed tandem mass tag-based mass spec- tions in epithelial biology and disease. trometry. Affinity enrichment-mass spectrometry identified more than 150 previously unidentified APC interaction Implications: The tumor-suppressive function of APC, the partners. Moreover, our global proteomic analysis revealed most frequently mutated gene in colorectal cancer, is mainly that roughly half of the protein expression changes that attributed to its role in b-catenin/Wnt signaling. Our study occur in response to APC loss are independent of b-catenin. -
Cerebral Cavernous Malformation Proteins in Barrier Maintenance and Regulation
International Journal of Molecular Sciences Review Cerebral Cavernous Malformation Proteins in Barrier Maintenance and Regulation 1,2, 2, 3 2 3 Shu Wei y, Ye Li y, Sean P. Polster , Christopher R. Weber , Issam A. Awad and Le Shen 2,3,* 1 Graduate Program in Public Health and Preventive Medicine, Wuhan University of Science and Technology, Wuhan 430081, China; [email protected] 2 Department of Pathology, The University of Chicago, Chicago, IL 60615, USA; [email protected] (Y.L.); [email protected] (C.R.W.) 3 Section of Neurosurgery, Department of Surgery, The University of Chicago, Chicago, IL 60615, USA; [email protected] (S.P.P.); [email protected] (I.A.A.) * Correspondence: [email protected] These authors contributed equally. y Received: 10 December 2019; Accepted: 15 January 2020; Published: 20 January 2020 Abstract: Cerebral cavernous malformation (CCM) is a disease characterized by mulberry shaped clusters of dilated microvessels, primarily in the central nervous system. Such lesions can cause seizures, headaches, and stroke from brain bleeding. Loss-of-function germline and somatic mutations of a group of genes, called CCM genes, have been attributed to disease pathogenesis. In this review, we discuss the impact of CCM gene encoded proteins on cellular signaling, barrier function of endothelium and epithelium, and their contribution to CCM and potentially other diseases. Keywords: cerebral cavernous malformation; endothelial barrier; epithelial barrier; Rho; ROCK; MEKK3 1. Introduction One of the key functions of endothelial and epithelial cells is to create a barrier that separates different tissue compartments, and in the case of skin, epithelial cells separate body and outer environment. -
Comprehensive Transcriptome Analysis of Cerebral Cavernous Malformation Across Multiple Species and Genotypes
Comprehensive transcriptome analysis of cerebral cavernous malformation across multiple species and genotypes Janne Koskimäki, … , Douglas A. Marchuk, Issam A. Awad JCI Insight. 2019;4(3):e126167. https://doi.org/10.1172/jci.insight.126167. Research Article Neuroscience Vascular biology Graphical abstract Find the latest version: https://jci.me/126167/pdf RESEARCH ARTICLE Comprehensive transcriptome analysis of cerebral cavernous malformation across multiple species and genotypes Janne Koskimäki,1 Romuald Girard,1 Yan Li,2 Laleh Saadat,1 Hussein A. Zeineddine,1 Rhonda Lightle,1 Thomas Moore,1 Seán Lyne,1 Kenneth Avner,1 Robert Shenkar,1 Ying Cao,1 Changbin Shi,1 Sean P. Polster,1 Dongdong Zhang,1 Julián Carrión-Penagos,1 Sharbel Romanos,1 Gregory Fonseca,3 Miguel A. Lopez-Ramirez,4 Eric M. Chapman,5 Evelyn Popiel,5 Alan T. Tang,6 Amy Akers,7 Pieter Faber,8 Jorge Andrade,2 Mark Ginsberg,4 W. Brent Derry,5,9 Mark L. Kahn,6 Douglas A. Marchuk,10 and Issam A. Awad1 1Neurovascular Surgery Program, Section of Neurosurgery, The University of Chicago Medicine and Biological Sciences, Chicago, Illinois, USA. 2Center for Research Informatics, The University of Chicago, Chicago, Illinois, USA. 3Department of Cellular and Molecular Medicine and 4Department of Medicine, UCSD, La Jolla, California, USA. 5Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada. 6Department of Medicine and Cardiovascular Institute, University of Pennsylvania, Philadelphia, Pennsylvania, USA. 7Angioma Alliance, Norfolk, Virginia, USA. 8University of Chicago Genomics Facility, The University of Chicago, Chicago, Illinois, USA. 9Program in Developmental and Stem Cell Biology, Hospital for Sick Children, Toronto, Ontario, Canada. 10The Molecular Genetics and Microbiology Department, Duke University Medical Center, Durham, North Carolina, USA. -
MOB (Mps One Binder) Proteins in the Hippo Pathway and Cancer
Review MOB (Mps one Binder) Proteins in the Hippo Pathway and Cancer Ramazan Gundogdu 1 and Alexander Hergovich 2,* 1 Vocational School of Health Services, Bingol University, 12000 Bingol, Turkey; [email protected] 2 UCL Cancer Institute, University College London, WC1E 6BT, London, United Kingdom * Correspondence: [email protected]; Tel.: +44 20 7679 2000; Fax: +44 20 7679 6817 Received: 1 May 2019; Accepted: 4 June 2019; Published: 10 June 2019 Abstract: The family of MOBs (monopolar spindle-one-binder proteins) is highly conserved in the eukaryotic kingdom. MOBs represent globular scaffold proteins without any known enzymatic activities. They can act as signal transducers in essential intracellular pathways. MOBs have diverse cancer-associated cellular functions through regulatory interactions with members of the NDR/LATS kinase family. By forming additional complexes with serine/threonine protein kinases of the germinal centre kinase families, other enzymes and scaffolding factors, MOBs appear to be linked to an even broader disease spectrum. Here, we review our current understanding of this emerging protein family, with emphases on post-translational modifications, protein-protein interactions, and cellular processes that are possibly linked to cancer and other diseases. In particular, we summarise the roles of MOBs as core components of the Hippo tissue growth and regeneration pathway. Keywords: Mps one binder; Hippo pathway; protein kinase; signal transduction; phosphorylation; protein-protein interactions; structure biology; STK38; NDR; LATS; MST; STRIPAK 1. Introduction The family of MOBs (monopolar spindle-one-binder proteins) is highly conserved in eukaryotes [1–4]. To our knowledge, at least two different MOBs have been found in every eukaryote analysed so far. -
Cavernous Malformations of the Nervous System
Cavernous Malformations of the Nervous System Cavernous Malformations of the Nervous System Edited by Daniele Rigamonti Johns Hopkins University cambridge university press Cambridge University Press has no responsibility for the Cambridge, New York, Melbourne, Madrid, Cape Town, persistence or accuracy of URLs for external or third-party Singapore, São Paulo, Delhi, Tokyo, Mexico City internet websites referred to in this publication, and does not guarantee that any content on such websites is, or will Cambridge University Press remain, accurate or appropriate. The Edinburgh Building, Cambridge CB2 8RU, UK Every effort has been made in preparing this book to provide Published in the United States of America by Cambridge accurate and up-to-date information which is in accord with University Press, New York accepted standards and practice at the time of publication. Although case histories are drawn from actual cases, every www.cambridge.org effort has been made to disguise the identities of the individuals involved. Nevertheless, the authors, editors and Information on this title: www.cambridge.org/ publishers can make no warranties that the information 9780521764278 contained herein is totally free from error, not least because clinical standards are constantly changing through research © Cambridge University Press 2011 and regulation. The authors, editors and publishers therefore disclaim all liability for direct or consequential damages This publication is in copyright. Subject to statutory resulting from the use of material contained in this book. exception Readers are strongly advised to pay careful attention to and to the provisions of relevant collective licensing information provided by the manufacturer of any drugs or agreements, equipment that they plan to use. -
UNIVERSITY of CALIFORNIA, SAN DIEGO Measuring
UNIVERSITY OF CALIFORNIA, SAN DIEGO Measuring and Correlating Blood and Brain Gene Expression Levels: Assays, Inbred Mouse Strain Comparisons, and Applications to Human Disease Assessment A dissertation submitted in partial satisfaction of the requirements for the degree of Doctor of Philosophy in Biomedical Sciences by Mary Elizabeth Winn Committee in charge: Professor Nicholas J Schork, Chair Professor Gene Yeo, Co-Chair Professor Eric Courchesne Professor Ron Kuczenski Professor Sanford Shattil 2011 Copyright Mary Elizabeth Winn, 2011 All rights reserved. 2 The dissertation of Mary Elizabeth Winn is approved, and it is acceptable in quality and form for publication on microfilm and electronically: Co-Chair Chair University of California, San Diego 2011 iii DEDICATION To my parents, Dennis E. Winn II and Ann M. Winn, to my siblings, Jessica A. Winn and Stephen J. Winn, and to all who have supported me throughout this journey. iv TABLE OF CONTENTS Signature Page iii Dedication iv Table of Contents v List of Figures viii List of Tables x Acknowledgements xiii Vita xvi Abstract of Dissertation xix Chapter 1 Introduction and Background 1 INTRODUCTION 2 Translational Genomics, Genome-wide Expression Analysis, and Biomarker Discovery 2 Neuropsychiatric Diseases, Tissue Accessibility and Blood-based Gene Expression 4 Mouse Models of Human Disease 5 Microarray Gene Expression Profiling and Globin Reduction 7 Finding and Accessible Surrogate Tissue for Neural Tissue 9 Genetic Background Effect Analysis 11 SPECIFIC AIMS 12 ENUMERATION OF CHAPTERS -
Autocrine IFN Signaling Inducing Profibrotic Fibroblast Responses By
Downloaded from http://www.jimmunol.org/ by guest on September 23, 2021 Inducing is online at: average * The Journal of Immunology , 11 of which you can access for free at: 2013; 191:2956-2966; Prepublished online 16 from submission to initial decision 4 weeks from acceptance to publication August 2013; doi: 10.4049/jimmunol.1300376 http://www.jimmunol.org/content/191/6/2956 A Synthetic TLR3 Ligand Mitigates Profibrotic Fibroblast Responses by Autocrine IFN Signaling Feng Fang, Kohtaro Ooka, Xiaoyong Sun, Ruchi Shah, Swati Bhattacharyya, Jun Wei and John Varga J Immunol cites 49 articles Submit online. Every submission reviewed by practicing scientists ? is published twice each month by Receive free email-alerts when new articles cite this article. Sign up at: http://jimmunol.org/alerts http://jimmunol.org/subscription Submit copyright permission requests at: http://www.aai.org/About/Publications/JI/copyright.html http://www.jimmunol.org/content/suppl/2013/08/20/jimmunol.130037 6.DC1 This article http://www.jimmunol.org/content/191/6/2956.full#ref-list-1 Information about subscribing to The JI No Triage! Fast Publication! Rapid Reviews! 30 days* Why • • • Material References Permissions Email Alerts Subscription Supplementary The Journal of Immunology The American Association of Immunologists, Inc., 1451 Rockville Pike, Suite 650, Rockville, MD 20852 Copyright © 2013 by The American Association of Immunologists, Inc. All rights reserved. Print ISSN: 0022-1767 Online ISSN: 1550-6606. This information is current as of September 23, 2021. The Journal of Immunology A Synthetic TLR3 Ligand Mitigates Profibrotic Fibroblast Responses by Inducing Autocrine IFN Signaling Feng Fang,* Kohtaro Ooka,* Xiaoyong Sun,† Ruchi Shah,* Swati Bhattacharyya,* Jun Wei,* and John Varga* Activation of TLR3 by exogenous microbial ligands or endogenous injury-associated ligands leads to production of type I IFN. -
Original Article Differential Expression of MST4, STK25 and PDCD10 Between Benign Prostatic Hyperplasia and Prostate Cancer
Int J Clin Exp Pathol 2014;7(11):8105-8111 www.ijcep.com /ISSN:1936-2625/IJCEP0002723 Original Article Differential expression of MST4, STK25 and PDCD10 between benign prostatic hyperplasia and prostate cancer Heyu Zhang1,3,4, Xi Ma5, Saihui Peng1,3, Xu Nan2,3, Hongshan Zhao2,3 1Department of Immunology, School of Basic Medical Sciences, Peking University, No. 38 Xueyuan Road, Beijing, PR China; 2Department of Medical Genetics, School of Basic Medical Sciences, Peking University, 38 Xueyuan Road, Beijing, PR China; 3Human Disease Genomics Center, Peking University, 38 Xueyuan Road, Beijing, PR China; 4Central Laboratory, Peking University School of Stomatology, 22 South Zhongguancun Road, Beijing, PR China; 5State Key Lab of Animal Nutrition, China Agricultural University, 2 Yuanmingyuan West Road, Beijing 100193, PR China Received September 22, 2014; Accepted November 8, 2014; Epub October 15, 2014; Published November 1, 2014 Abstract: Both benign prostatic hyperplasia (BPH) and prostate cancer (PC) are common diseases for men around the world. Both serine/threonine protein kinase MST4 (MST4) and serine/threonine kinase 25 (STK25) belong to the Ste20-like kinases and interact with programmed cell death 10 (PDCD10) which is closely linked to cancer diseases. To clarify the roles of MST4, STK25 and PDCD10 in prostate carcinogenesis, we examined MST4, STK25 and PDCD10 expression in tissue microarray blocks containing 110 cores of BPH and 160 cores of PC immunohisto- chemically and evaluated their correlation with clinicopathological findings. MST4 was not expressed in all the BPH cases and expressed in 38.7% of PC cases (P < 0.0001). STK25 expression was found in 77.3% of BPH cases and 93.1% of PC cases (P < 0.0001).