Batf3 and Id2 Have a Synergistic Effect on Irf8-Directed Classical Cd8α+ Dendritic Cell Development
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Kent Academic Repository Full Text Document (Pdf)
Kent Academic Repository Full text document (pdf) Citation for published version Sanders, Lara Clare (2017) Investigation of platinum drug mode of action and resistance using yeast and human neuroblastoma cells as model systems. Doctor of Philosophy (PhD) thesis, University of Kent,. DOI Link to record in KAR https://kar.kent.ac.uk/61254/ Document Version UNSPECIFIED Copyright & reuse Content in the Kent Academic Repository is made available for research purposes. Unless otherwise stated all content is protected by copyright and in the absence of an open licence (eg Creative Commons), permissions for further reuse of content should be sought from the publisher, author or other copyright holder. Versions of research The version in the Kent Academic Repository may differ from the final published version. Users are advised to check http://kar.kent.ac.uk for the status of the paper. Users should always cite the published version of record. Enquiries For any further enquiries regarding the licence status of this document, please contact: [email protected] If you believe this document infringes copyright then please contact the KAR admin team with the take-down information provided at http://kar.kent.ac.uk/contact.html APPENDIX Investigation of platinum drug mode of action and resistance using yeast and human neuroblastoma cells as model systems 2016 Lara Sanders A thesis submitted to the University of Kent for the degree of Doctor of Cell Biology University of Kent Faculty of Sciences Page | 1 APPENDIX contents A. Members of the transcription regulator library of gene deletion yeast strains, their names and role descriptions, and their positions in a total of three 96- B. -
The Hematopoietic Tumor Suppressor Interferon Regulatory Factor 8 (IRF8) Is Upregulated by the Antimetabolite Cytarabine in Leuk
The hematopoietic tumor suppressor interferon regulatory factor 8 (IRF8) is upregulated by the antimetabolite cytarabine in leukemic cells involving the zinc finger protein ZNF224, acting as a cofactor of the Wilms' tumor gene 1 (WT1) protein. Montano, Giorgia; Ullmark, Tove; Jernmark Nilsson, Helena; Sodaro, Gaetano; Drott, Kristina; Costanzo, Paola; Vidovic, Karina; Gullberg, Urban Published in: Leukemia Research: A Forum for Studies on Leukemia and Normal Hemopoiesis DOI: 10.1016/j.leukres.2015.10.014 2016 Document Version: Peer reviewed version (aka post-print) Link to publication Citation for published version (APA): Montano, G., Ullmark, T., Jernmark Nilsson, H., Sodaro, G., Drott, K., Costanzo, P., Vidovic, K., & Gullberg, U. (2016). The hematopoietic tumor suppressor interferon regulatory factor 8 (IRF8) is upregulated by the antimetabolite cytarabine in leukemic cells involving the zinc finger protein ZNF224, acting as a cofactor of the Wilms' tumor gene 1 (WT1) protein. Leukemia Research: A Forum for Studies on Leukemia and Normal Hemopoiesis, 40(1), 60-67. https://doi.org/10.1016/j.leukres.2015.10.014 Total number of authors: 8 General rights Unless other specific re-use rights are stated the following general rights apply: Copyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright owners and it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights. • Users may download and print -
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. -
4-6 Weeks Old Female C57BL/6 Mice Obtained from Jackson Labs Were Used for Cell Isolation
Methods Mice: 4-6 weeks old female C57BL/6 mice obtained from Jackson labs were used for cell isolation. Female Foxp3-IRES-GFP reporter mice (1), backcrossed to B6/C57 background for 10 generations, were used for the isolation of naïve CD4 and naïve CD8 cells for the RNAseq experiments. The mice were housed in pathogen-free animal facility in the La Jolla Institute for Allergy and Immunology and were used according to protocols approved by the Institutional Animal Care and use Committee. Preparation of cells: Subsets of thymocytes were isolated by cell sorting as previously described (2), after cell surface staining using CD4 (GK1.5), CD8 (53-6.7), CD3ε (145- 2C11), CD24 (M1/69) (all from Biolegend). DP cells: CD4+CD8 int/hi; CD4 SP cells: CD4CD3 hi, CD24 int/lo; CD8 SP cells: CD8 int/hi CD4 CD3 hi, CD24 int/lo (Fig S2). Peripheral subsets were isolated after pooling spleen and lymph nodes. T cells were enriched by negative isolation using Dynabeads (Dynabeads untouched mouse T cells, 11413D, Invitrogen). After surface staining for CD4 (GK1.5), CD8 (53-6.7), CD62L (MEL-14), CD25 (PC61) and CD44 (IM7), naïve CD4+CD62L hiCD25-CD44lo and naïve CD8+CD62L hiCD25-CD44lo were obtained by sorting (BD FACS Aria). Additionally, for the RNAseq experiments, CD4 and CD8 naïve cells were isolated by sorting T cells from the Foxp3- IRES-GFP mice: CD4+CD62LhiCD25–CD44lo GFP(FOXP3)– and CD8+CD62LhiCD25– CD44lo GFP(FOXP3)– (antibodies were from Biolegend). In some cases, naïve CD4 cells were cultured in vitro under Th1 or Th2 polarizing conditions (3, 4). -
Clinical Utility of Recently Identified Diagnostic, Prognostic, And
Modern Pathology (2017) 30, 1338–1366 1338 © 2017 USCAP, Inc All rights reserved 0893-3952/17 $32.00 Clinical utility of recently identified diagnostic, prognostic, and predictive molecular biomarkers in mature B-cell neoplasms Arantza Onaindia1, L Jeffrey Medeiros2 and Keyur P Patel2 1Instituto de Investigacion Marques de Valdecilla (IDIVAL)/Hospital Universitario Marques de Valdecilla, Santander, Spain and 2Department of Hematopathology, MD Anderson Cancer Center, Houston, TX, USA Genomic profiling studies have provided new insights into the pathogenesis of mature B-cell neoplasms and have identified markers with prognostic impact. Recurrent mutations in tumor-suppressor genes (TP53, BIRC3, ATM), and common signaling pathways, such as the B-cell receptor (CD79A, CD79B, CARD11, TCF3, ID3), Toll- like receptor (MYD88), NOTCH (NOTCH1/2), nuclear factor-κB, and mitogen activated kinase signaling, have been identified in B-cell neoplasms. Chronic lymphocytic leukemia/small lymphocytic lymphoma, diffuse large B-cell lymphoma, follicular lymphoma, mantle cell lymphoma, Burkitt lymphoma, Waldenström macroglobulinemia, hairy cell leukemia, and marginal zone lymphomas of splenic, nodal, and extranodal types represent examples of B-cell neoplasms in which novel molecular biomarkers have been discovered in recent years. In addition, ongoing retrospective correlative and prospective outcome studies have resulted in an enhanced understanding of the clinical utility of novel biomarkers. This progress is reflected in the 2016 update of the World Health Organization classification of lymphoid neoplasms, which lists as many as 41 mature B-cell neoplasms (including provisional categories). Consequently, molecular genetic studies are increasingly being applied for the clinical workup of many of these neoplasms. In this review, we focus on the diagnostic, prognostic, and/or therapeutic utility of molecular biomarkers in mature B-cell neoplasms. -
Contents I. Central Nervous System Diseases Ii
CONTENTS CONTRIBUTORS xi PREFACE xiii CORRIGENDUM xv I. CENTRAL NERVOUS SYSTEM DISEASES Section Editor: David Wustrow, Pfizer Global Research & Development, Ann Arbor, Michigan 1. Neuronal Nicotinic Acetylcholine Receptor Modulators: Recent Advances and Therapeutic Potential 3 Scott R. Breining, Anatoly A. Mazurov and Craig H. Miller, Targacept, Inc., 200 East First Street, Suite 300, Winston-Salem, NC 27101 2. Recent Advances in Selective Serotonergic Agents 17 Wayne E. Childers, Jr. and Albert J. Robichaud, Chemical & Screening Sciences, Wyeth Research, CN 8000, Princeton, NJ 08543 3. BACE Inhibitors for the Treatment of Alzheimer’s Disease 35 Ellen W. Baxter and Allen B. Reitz, Johnson & Johnson Pharmaceutical Research and Development LLC, Spring House, PA 19477-0776 4. Positron Emission Tomography Agents for Central Nervous System Drug Development Applications 49 N. Scott Masona and Chester A. Mathisa,b,c, aDepartments of Radiology, bPharmacology and cPharmaceutical Sciences, University of Pittsburgh, Pittsburgh, PA, 15213, USA II. CARDIOVASCULAR AND METABOLIC DISEASES Section Editor: Andrew Stamford, Schering-Plough Research Institute, 2015 Galloping Hill Road, Kenilworth, New Jersey 5. Emerging Topics in Atherosclerosis: HDL Raising Therapies 71 Peter J. Sinclair, Merck Research Laboratories, Rahway, NJ 07065, USA v vi Contents 6. Small Molecule Anticoagulant/Antithrombotic Agents 85 Robert M. Scarborough, Anjali Pandey and Xiaoming Zhang, Portola Pharmaceuticals, Inc., 270 East Grand Ave., Suite 22, South San Francisco, CA 94080, USA 7. CB1 Cannabinoid Receptor Antagonists 103 Francis Barth, Sanofi-aventis, 371 rue du Professeur Blayac 34184 Montpellier Cedex 04, France 8. Melanin-Concentrating Hormone as a Therapeutic Target 119 Mark D. McBriar and Timothy J. Kowalski, Schering-Plough Research Institute, 2015 Galloping Hill Road, Kenilworth, NJ 07033 9. -
An Immunoevasive Strategy Through Clinically-Relevant Pan-Cancer Genomic and Transcriptomic Alterations of JAK-STAT Signaling Components
bioRxiv preprint doi: https://doi.org/10.1101/576645; this version posted March 14, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. An immunoevasive strategy through clinically-relevant pan-cancer genomic and transcriptomic alterations of JAK-STAT signaling components Wai Hoong Chang1 and Alvina G. Lai1, 1Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford, OX3 7FZ, United Kingdom Since its discovery almost three decades ago, the Janus ki- Although cytokines are responsible for inflammation in nase (JAK)-signal transducer and activator of transcription cancer, spontaneous eradication of tumors by endoge- (STAT) pathway has paved the road for understanding inflam- nous immune processes rarely occurs. Moreover, the matory and immunity processes related to a wide range of hu- dynamic interaction between tumor cells and host immu- man pathologies including cancer. Several studies have demon- nity shields tumors from immunological ablation, which strated the importance of JAK-STAT pathway components in overall limits the efficacy of immunotherapy in the clinic. regulating tumor initiation and metastatic progression, yet, the extent of how genetic alterations influence patient outcome is far from being understood. Focusing on 133 genes involved in Cytokines can be pro- or anti-inflammatory and are inter- JAK-STAT signaling, we found that copy number alterations dependent on each other’s function to maintain immune underpin transcriptional dysregulation that differs within and homeostasis(3). -
Cellular and Molecular Signatures in the Disease Tissue of Early
Cellular and Molecular Signatures in the Disease Tissue of Early Rheumatoid Arthritis Stratify Clinical Response to csDMARD-Therapy and Predict Radiographic Progression Frances Humby1,* Myles Lewis1,* Nandhini Ramamoorthi2, Jason Hackney3, Michael Barnes1, Michele Bombardieri1, Francesca Setiadi2, Stephen Kelly1, Fabiola Bene1, Maria di Cicco1, Sudeh Riahi1, Vidalba Rocher-Ros1, Nora Ng1, Ilias Lazorou1, Rebecca E. Hands1, Desiree van der Heijde4, Robert Landewé5, Annette van der Helm-van Mil4, Alberto Cauli6, Iain B. McInnes7, Christopher D. Buckley8, Ernest Choy9, Peter Taylor10, Michael J. Townsend2 & Costantino Pitzalis1 1Centre for Experimental Medicine and Rheumatology, William Harvey Research Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of London, Charterhouse Square, London EC1M 6BQ, UK. Departments of 2Biomarker Discovery OMNI, 3Bioinformatics and Computational Biology, Genentech Research and Early Development, South San Francisco, California 94080 USA 4Department of Rheumatology, Leiden University Medical Center, The Netherlands 5Department of Clinical Immunology & Rheumatology, Amsterdam Rheumatology & Immunology Center, Amsterdam, The Netherlands 6Rheumatology Unit, Department of Medical Sciences, Policlinico of the University of Cagliari, Cagliari, Italy 7Institute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow G12 8TA, UK 8Rheumatology Research Group, Institute of Inflammation and Ageing (IIA), University of Birmingham, Birmingham B15 2WB, UK 9Institute of -
Quantigene Flowrna Probe Sets Currently Available
QuantiGene FlowRNA Probe Sets Currently Available Accession No. Species Symbol Gene Name Catalog No. NM_003452 Human ZNF189 zinc finger protein 189 VA1-10009 NM_000057 Human BLM Bloom syndrome VA1-10010 NM_005269 Human GLI glioma-associated oncogene homolog (zinc finger protein) VA1-10011 NM_002614 Human PDZK1 PDZ domain containing 1 VA1-10015 NM_003225 Human TFF1 Trefoil factor 1 (breast cancer, estrogen-inducible sequence expressed in) VA1-10016 NM_002276 Human KRT19 keratin 19 VA1-10022 NM_002659 Human PLAUR plasminogen activator, urokinase receptor VA1-10025 NM_017669 Human ERCC6L excision repair cross-complementing rodent repair deficiency, complementation group 6-like VA1-10029 NM_017699 Human SIDT1 SID1 transmembrane family, member 1 VA1-10032 NM_000077 Human CDKN2A cyclin-dependent kinase inhibitor 2A (melanoma, p16, inhibits CDK4) VA1-10040 NM_003150 Human STAT3 signal transducer and activator of transcripton 3 (acute-phase response factor) VA1-10046 NM_004707 Human ATG12 ATG12 autophagy related 12 homolog (S. cerevisiae) VA1-10047 NM_000737 Human CGB chorionic gonadotropin, beta polypeptide VA1-10048 NM_001017420 Human ESCO2 establishment of cohesion 1 homolog 2 (S. cerevisiae) VA1-10050 NM_197978 Human HEMGN hemogen VA1-10051 NM_001738 Human CA1 Carbonic anhydrase I VA1-10052 NM_000184 Human HBG2 Hemoglobin, gamma G VA1-10053 NM_005330 Human HBE1 Hemoglobin, epsilon 1 VA1-10054 NR_003367 Human PVT1 Pvt1 oncogene homolog (mouse) VA1-10061 NM_000454 Human SOD1 Superoxide dismutase 1, soluble (amyotrophic lateral sclerosis 1 (adult)) -
Requirement of Estrogen Receptor Alpha DNA-Binding Domain for HPV Oncogene-Induced Cervical Carcinogenesis in Mice
Carcinogenesis vol.35 no.2 pp.489–496, 2014 doi:10.1093/carcin/bgt350 Advance Access publication October 22, 2013 Requirement of estrogen receptor alpha DNA-binding domain for HPV oncogene-induced cervical carcinogenesis in mice Jieun Son†, Jung Wook Park1,†, Paul F.Lambert1 and detected by Pap test can be easily removed by simple surgical proce- Sang-Hyuk Chung* dures, thereby preventing the cancer. These surgeries, however, are associated with adverse outcomes in future pregnancy, including pre- Department of Biology and Biochemistry, Center for Nuclear Receptors and term birth and infant morbidity (5). A better understanding of cervical Cell Signaling, University of Houston, 3605 Cullen Boulevard, Houston, TX 1 cancer pathogenesis is needed to develop a non-invasive method to 77204, USA and Department of Oncology, McArdle Laboratory for Cancer manage the cancer and CIN more effectively. Research, University of Wisconsin School of Medicine and Public Health, Madison, WI 53706, USA A subset of >100 HPV types is causally associated with various human cancers including those in the uterine cervix (2). They are *To whom correspondence should be addressed. Tel: +1 832 842 8181; called high-risk HPVs and transmitted mainly by sexual contacts. Fax: +1 713 743 0634; Most commonly found in cancers is HPV16 followed by HPV18, Email: [email protected] both of which are commonly targeted by current prophylactic HPV Correspondence may also be addressed to Paul F.Lambert. Tel: +1 608 262 8533; Fax: +1 608 262 2824; vaccines (3). These two types account only for 70–80% of all cervical Email: [email protected] cancers and thus those vaccines have little impact on the remainder. -
The Role of Histone Acetylation in Cocaine-Induced Neural Plasticity and Behavior
Neuropsychopharmacology REVIEWS (2013) 38, 94–110 & 2013 American College of Neuropsychopharmacology. All rights reserved 0893-133X/13 ............................................................................................................................................................... REVIEW 94 www.neuropsychopharmacology.org The Role of Histone Acetylation in Cocaine-Induced Neural Plasticity and Behavior 1 ,1 George A Rogge and Marcelo A Wood* 1 Department of Neurobiology and Behavior, Center for the Neurobiology of Learning and Memory, University of California, Irvine, 301 Qureshey Research Lab, Irvine, CA, USA How do drugs of abuse, such as cocaine, cause stable changes in neural plasticity that in turn drive long-term changes in behavior? What kind of mechanism can underlie such stable changes in neural plasticity? One prime candidate mechanism is epigenetic mechanisms of chromatin regulation. Chromatin regulation has been shown to generate short-term and long-term molecular memory within an individual cell. They have also been shown to underlie cell fate decisions (or cellular memory). Now, there is accumulating evidence that in the CNS, these same mechanisms may be pivotal for drug-induced changes in gene expression and ultimately long-term behavioral changes. As these mechanisms are also being found to be fundamental for learning and memory, an exciting new possibility is the extinction of drug-seeking behavior by manipulation of epigenetic mechanisms. In this review, we critically discuss the evidence demonstrating a -
The Effect of STAT5 on Inflammation-Related Gene Expression in Diabetic Mouse
The Effect of STAT5 on Inflammation-Related Gene Expression in Diabetic Mouse Kidneys A thesis presented to the faculty of the College of Arts and Sciences of Ohio University In partial fulfillment of the requirements for the degree Master of Science Samantha J. Shaw May 2014 © 2014 Samantha J. Shaw. All Rights Reserved. 2 This thesis titled The Effect of STAT5 on Inflammation-Related Gene Expression in Diabetic Mouse Kidneys by SAMANTHA J. SHAW has been approved for the Department of Biological Sciences and the College of Arts and Sciences by Karen T. Coschigano Associate Professor of Biomedical Sciences Robert Frank Dean, College of Arts and Sciences 3 ABSTRACT SHAW, SAMANTHA J., M.S., May 2014, Biological Sciences The Effect of STAT5 on Inflammation-Related Gene Expression in Diabetic Mouse Kidneys Director of Thesis: Karen T. Coschigano Diabetic nephropathy (DN) is the leading cause of end-stage renal disease and renal failure in humans. The molecular pathways that lead to DN are not well known. This research investigates possible roles of several signal transducers and activators of transcription (STAT) proteins in this disease using a STAT5A/B knockout (SKO) mouse model. Based on previous observations of increased inflammation-related gene expression in the kidneys of diabetic SKO mice, the hypothesis of the current project was that the combination of the loss of STAT5 repression and increase of STAT3 activity escalates inflammation-related gene expression in the kidneys of diabetic SKO mice. In support of this hypothesis, an increase of IRF-1 RNA expression, reflective of the loss of STAT5 repression, was observed in the kidneys of diabetic SKO mice.