A Fine-Tuned Β-Catenin Regulation During Proliferation of Corneal
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A Case of Prenatal Diagnosis of 18P Deletion Syndrome Following
Zhao et al. Molecular Cytogenetics (2019) 12:53 https://doi.org/10.1186/s13039-019-0464-y CASE REPORT Open Access A case of prenatal diagnosis of 18p deletion syndrome following noninvasive prenatal testing Ganye Zhao, Peng Dai, Shanshan Gao, Xuechao Zhao, Conghui Wang, Lina Liu and Xiangdong Kong* Abstract Background: Chromosome 18p deletion syndrome is a disease caused by the complete or partial deletion of the short arm of chromosome 18, there were few cases reported about the prenatal diagnosis of 18p deletion syndrome. Noninvasive prenatal testing (NIPT) is widely used in the screening of common fetal chromosome aneuploidy. However, the segmental deletions and duplications should also be concerned. Except that some cases had increased nuchal translucency or holoprosencephaly, most of the fetal phenotype of 18p deletion syndrome may not be evident during the pregnancy, 18p deletion syndrome was always accidentally discovered during the prenatal examination. Case presentations: In our case, we found a pure partial monosomy 18p deletion during the confirmation of the result of NIPT by copy number variation sequencing (CNV-Seq). The result of NIPT suggested that there was a partial or complete deletion of X chromosome. The amniotic fluid karyotype was normal, but result of CNV-Seq indicated a 7.56 Mb deletion on the short arm of chromosome 18 but not in the couple, which means the deletion was de novo deletion. Finally, the parents chose to terminate the pregnancy. Conclusions: To our knowledge, this is the first case of prenatal diagnosis of 18p deletion syndrome following NIPT.NIPT combined with ultrasound may be a relatively efficient method to screen chromosome microdeletions especially for the 18p deletion syndrome. -
PARSANA-DISSERTATION-2020.Pdf
DECIPHERING TRANSCRIPTIONAL PATTERNS OF GENE REGULATION: A COMPUTATIONAL APPROACH by Princy Parsana A dissertation submitted to The Johns Hopkins University in conformity with the requirements for the degree of Doctor of Philosophy Baltimore, Maryland July, 2020 © 2020 Princy Parsana All rights reserved Abstract With rapid advancements in sequencing technology, we now have the ability to sequence the entire human genome, and to quantify expression of tens of thousands of genes from hundreds of individuals. This provides an extraordinary opportunity to learn phenotype relevant genomic patterns that can improve our understanding of molecular and cellular processes underlying a trait. The high dimensional nature of genomic data presents a range of computational and statistical challenges. This dissertation presents a compilation of projects that were driven by the motivation to efficiently capture gene regulatory patterns in the human transcriptome, while addressing statistical and computational challenges that accompany this data. We attempt to address two major difficulties in this domain: a) artifacts and noise in transcriptomic data, andb) limited statistical power. First, we present our work on investigating the effect of artifactual variation in gene expression data and its impact on trans-eQTL discovery. Here we performed an in-depth analysis of diverse pre-recorded covariates and latent confounders to understand their contribution to heterogeneity in gene expression measurements. Next, we discovered 673 trans-eQTLs across 16 human tissues using v6 data from the Genotype Tissue Expression (GTEx) project. Finally, we characterized two trait-associated trans-eQTLs; one in Skeletal Muscle and another in Thyroid. Second, we present a principal component based residualization method to correct gene expression measurements prior to reconstruction of co-expression networks. -
Loss of At-Catenin Alters the Hybrid Adhering Junctions in the Heart and Leads to Dilated Cardiomyopathy and Ventricular Arrhythmia Following Acute Ischemia
1058 Research Article Loss of aT-catenin alters the hybrid adhering junctions in the heart and leads to dilated cardiomyopathy and ventricular arrhythmia following acute ischemia Jifen Li1,*, Steven Goossens2,3,`, Jolanda van Hengel2,3,`, Erhe Gao1, Lan Cheng1, Koen Tyberghein2,3, Xiying Shang1, Riet De Rycke2, Frans van Roy2,3,* and Glenn L. Radice1 1Center for Translational Medicine, Department of Medicine, Thomas Jefferson University, Philadelphia, PA, USA 2Department for Molecular Biomedical Research, Flanders Institute for Biotechnology (VIB), B-9052 Ghent, Belgium 3Department of Biomedical Molecular Biology, Ghent University, B-9052 Ghent, Belgium *Authors for correspondence ([email protected]; [email protected]) `These authors contributed equally to this work Accepted 4 October 2011 Journal of Cell Science 125, 1058–1067 ß 2012. Published by The Company of Biologists Ltd doi: 10.1242/jcs.098640 Summary It is generally accepted that the intercalated disc (ICD) required for mechano-electrical coupling in the heart consists of three distinct junctional complexes: adherens junctions, desmosomes and gap junctions. However, recent morphological and molecular data indicate a mixing of adherens junctional and desmosomal components, resulting in a ‘hybrid adhering junction’ or ‘area composita’. The a-catenin family member aT-catenin, part of the N-cadherin–catenin adhesion complex in the heart, is the only a-catenin that interacts with the desmosomal protein plakophilin-2 (PKP2). Thus, it has been postulated that aT-catenin might serve as a molecular integrator of the two adhesion complexes in the area composita. To investigate the role of aT-catenin in the heart, gene targeting technology was used to delete the Ctnna3 gene, encoding aT-catenin, in the mouse. -
82135357.Pdf
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector Developmental Biology 319 (2008) 298–308 Contents lists available at ScienceDirect Developmental Biology journal homepage: www.elsevier.com/developmentalbiology Identification of a novel intermediate filament-linked N-cadherin/γ-catenin complex involved in the establishment of the cytoarchitecture of differentiated lens fiber cells Michelle Leonard, Yim Chan, A. Sue Menko ⁎ Department of Pathology, Anatomy and Cell Biology, Thomas Jefferson University, 571 Jefferson Alumni Hall, 1020 Locust Street, Philadelphia, PA 19107, USA article info abstract Article history: Tissue morphogenesis and maintenance of complex tissue architecture requires a variety of cell–cell junctions. Received for publication 17 December 2007 Typically, cells adhere to one another through cadherin junctions, both adherens and desmosomal junctions, Revised 14 April 2008 strengthened by association with cytoskeletal networks during development. Both β-andγ-catenins are Accepted 18 April 2008 reported to link classical cadherins to the actin cytoskeleton, but only γ-catenin binds to the desmosomal Available online 8 May 2008 cadherins, which links them to intermediate filaments through its association with desmoplakin. Here we fi γ Keywords: provide the rst biochemical evidence that, in vivo, -catenin also mediates interactions between classical fi γ-catenin cadherins and the intermediate lament cytoskeleton, linked through desmoplakin. In the developing lens, Cadherin which has no desmosomes, we discovered that vimentin became linked to N-cadherin complexes in a Intermediate filament differentiation-state specific manner. This newly identified junctional complex was tissue specific but not Vimentin unique to the lens. To determine whether in this junction N-cadherin was linked to vimentin through γ- Lens development catenin or β-catenin we developed an innovative “double” immunoprecipitation technique. -
Overexpression of Vimentin Contributes to Prostate Cancer Invasion and Metastasis Via Src Regulation
ANTICANCER RESEARCH 28: 327-334 (2008) Overexpression of Vimentin Contributes to Prostate Cancer Invasion and Metastasis via Src Regulation JUNCHENG WEI*, GANG XU*, MINGFU WU, YONGTAO ZHANG, QIONG LI, PING LIU, TAO ZHU, ANPING SONG, LIANGPIN ZHAO, ZHIQIANG HAN, GANG CHEN, SHIXUAN WANG, LI MENG, JIANFENG ZHOU, YUNPING LU, SHIXUAN WANG and DING MA Cancer Biology Research Center, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei 430030, P.R. China Abstract. A significant proportion of prostate cancer patients Prostate carcinoma is the second leading cause of cancer- treated with curative intent develop advanced disease. At a related death in the United States and Europe (1), mainly fundamental biological level, very little is known about what due to its high potential for bone metastasis. However, the makes the disease aggressive and metastatic. Observational molecular mechanisms of prostate cancer metastasis are not pathology reports and experimental data suggest that an well understood. Among the currently available techniques, epithelial-mesenchymal transition (EMT) is involved in prostate cancer proteomics permits the analysis of thousands of cancer invasiveness. The mechanism by which vimentin modified or unmodified proteins simultaneously and has promotes prostate cancer cell invasion and metastasis was become increasingly popular for identifying biomarkers for examined. The highly metastatic human prostate epithelial cell the early detection, classification and prognosis of tumors, line PC-3M-1E8 (1E8-H) and the low metastatic line PC-3M- as well as for pinpointing molecular targets for improving 2B4 (2B4-L) were used for comparative proteomic analysis by treatment outcomes (2). two-dimensional gel electrophoresis, followed by matrix-assisted It is known that tumor progression to malignancy requires laser desorption/time of flight mass spectrometry (MALDI- a change from an epithelial phenotype to a fibroblast or TOF-MS). -
The Prevalence of MADH4 and BMPR1A Mutations in Juvenile Polyposis and Absence of BMPR2, BMPR1B, and ACVR1 Mutations
484 ORIGINAL ARTICLE J Med Genet: first published as 10.1136/jmg.2004.018598 on 2 July 2004. Downloaded from The prevalence of MADH4 and BMPR1A mutations in juvenile polyposis and absence of BMPR2, BMPR1B, and ACVR1 mutations J R Howe, M G Sayed, A F Ahmed, J Ringold, J Larsen-Haidle, A Merg, F A Mitros, C A Vaccaro, G M Petersen, F M Giardiello, S T Tinley, L A Aaltonen, H T Lynch ............................................................................................................................... J Med Genet 2004;41:484–491. doi: 10.1136/jmg.2004.018598 Background: Juvenile polyposis (JP) is an autosomal dominant syndrome predisposing to colorectal and gastric cancer. We have identified mutations in two genes causing JP, MADH4 and bone morphogenetic protein receptor 1A (BMPR1A): both are involved in bone morphogenetic protein (BMP) mediated signalling and are members of the TGF-b superfamily. This study determined the prevalence of mutations See end of article for in MADH4 and BMPR1A, as well as three other BMP/activin pathway candidate genes in a large number authors’ affiliations ....................... of JP patients. Methods: DNA was extracted from the blood of JP patients and used for PCR amplification of each exon of Correspondence to: these five genes, using primers flanking each intron–exon boundary. Mutations were determined by Dr J R Howe, Department of Surgery, 4644 JCP, comparison to wild type sequences using sequence analysis software. A total of 77 JP cases were University of Iowa College sequenced for mutations in the MADH4, BMPR1A, BMPR1B, BMPR2, and/or ACVR1 (activin A receptor) of Medicine, 200 Hawkins genes. The latter three genes were analysed when MADH4 and BMPR1A sequencing found no mutations. -
Mir-451A Suppresses Cell Proliferation, Metastasis and EMT Via Targeting YWHAZ in Hepatocellular Carcinoma
European Review for Medical and Pharmacological Sciences 2019; 23: 5158-5167 MiR-451a suppresses cell proliferation, metastasis and EMT via targeting YWHAZ in hepatocellular carcinoma G.-Y. WEI1, M. HU2, L. ZHAO1, W.-S. GUO1 1Department of General Surgery, Henan Traditional Chinese Medicine Hospital, Zhengzhou, China 2Department of Infection Management, Henan Traditional Chinese Medicine Hospital, Zhengzhou, China Abstract. – OBJECTIVE: MicroRNAs (miR- lines. Moreover, miR-451a inhibited the prolif- NAs) have been identified to participate in eration, invasion and migration of HCC cells via the progression of hepatocellular carcinoma targeting YWHAZ. Our findings indicated that (HCC). However, the function of miR-451a in miR-451a could serve as a novel target for HCC HCC remains unknown. The aim of this study diagnosis and biological therapy. was to determine the function of miR-451a by construction of several experiments in HCC tis- Key Words: sues and cells. MiR-451a, Hepatocellular carcinoma (HCC), Prolifer- PATIENTS AND METHODS: The expression ation, Metastasis, YWHAZ. level of miR-451a in 69 paired of HCC and ad- jacent normal tissue samples was detected us- ing quantitative Real-time polymerase chain re- Introduction action (qRT-PCR). MiR-451a expression in HCC derived cell lines was detected as well. By trans- fecting with miR-451a mimics or inhibitor, the Hepatocellular carcinoma (HCC) accounts expression level of miR-451a in HepG2 or Huh-7 for 85-90% of primary liver cancer. HCC is the cells was up- or down-regulated. MTT (3-(4,5-di- fifth most common morbidity and third most methylthiazol-2-yl)-2,5-diphenyl tetrazolium bro- common mortality cancer worldwide1. -
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. -
Human Endoglin/CD105 Quantikine
Quantikine® ELISA Human Endoglin/CD105 Immunoassay Catalog Number DNDG00 For the quantitative determination of human Endoglin concentrations in cell culture supernates, serum, and plasma. This package insert must be read in its entirety before using this product. For research use only. Not for use in diagnostic procedures. TABLE OF CONTENTS SECTION PAGE INTRODUCTION .....................................................................................................................................................................1 PRINCIPLE OF THE ASSAY ...................................................................................................................................................2 LIMITATIONS OF THE PROCEDURE .................................................................................................................................2 TECHNICAL HINTS .................................................................................................................................................................2 MATERIALS PROVIDED & STORAGE CONDITIONS ...................................................................................................3 OTHER SUPPLIES REQUIRED .............................................................................................................................................3 PRECAUTIONS .........................................................................................................................................................................4 SAMPLE COLLECTION & STORAGE -
A SARS-Cov-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing
A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing Supplementary Information Supplementary Discussion All SARS-CoV-2 protein and gene functions described in the subnetwork appendices, including the text below and the text found in the individual bait subnetworks, are based on the functions of homologous genes from other coronavirus species. These are mainly from SARS-CoV and MERS-CoV, but when available and applicable other related viruses were used to provide insight into function. The SARS-CoV-2 proteins and genes listed here were designed and researched based on the gene alignments provided by Chan et. al. 1 2020 . Though we are reasonably sure the genes here are well annotated, we want to note that not every protein has been verified to be expressed or functional during SARS-CoV-2 infections, either in vitro or in vivo. In an effort to be as comprehensive and transparent as possible, we are reporting the sub-networks of these functionally unverified proteins along with the other SARS-CoV-2 proteins. In such cases, we have made notes within the text below, and on the corresponding subnetwork figures, and would advise that more caution be taken when examining these proteins and their molecular interactions. Due to practical limits in our sample preparation and data collection process, we were unable to generate data for proteins corresponding to Nsp3, Orf7b, and Nsp16. Therefore these three genes have been left out of the following literature review of the SARS-CoV-2 proteins and the protein-protein interactions (PPIs) identified in this study. -
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 -
Gfh 2016 Tagungsband Final.Pdf
27. Jahrestagung der Deutschen Gesellschaft für Humangenetik 27. Jahrestagung der Deutschen Gesellschaft für Humangenetik gemeinsam mit der Österreichischen Gesellschaft für Humangenetik und der Schweizerischen Gesellschaft für Medizinische Genetik 16.–18. 3. 2016, Lübeck Tagungsort Prof. Dr. med. Jörg Epplen, Bochum (Tagungspräsident 2017) Prof. Dr. med. Michael Speicher, Graz (Tagungspräsident 2015) Hotel Hanseatischer Hof Prof. Dr. med. Klaus Zerres, Aachen Wisbystraße 7–9 Prof. Dr. rer. nat. Wolfgang Berger, Zürich (Delegierter der SGMG) 23558 Lübeck Univ.-Prof. DDr. med. univ. Johannes Zschocke, Telefon: (0451) 3 00 20-0 (Innsbruck Delegierter der ÖGH) http://www.hanseatischer- hof.de/ [email protected] Fachgesellschaften Die Jahrestagung fi ndet im Hotel Hanseatischer Hof statt, das sich Deutsche Gesellschaft für Humangenetik (GfH) in in fussläufi ger Entfernung vom Lübecker Hauptbahnhof befi ndet. Vorsitzender: Prof. Dr. med. Klaus Zerres, Aachen Stellvertretende Vorsitzende: Prof. Dr. med. Gabriele Gillessen- Tagungspräsidentin Kaesbach, Lübeck Stellvertretende Vorsitzende: Prof. Dr. biol. hum. Hildegard Prof. Dr. med. Gabriele Gillessen- Kaesbach Kehrer- Sawatzki, Ulm Institut für Humangenetik Schatzmeister: Dr. rer. nat. Wolfram Kress, Würzburg Universität zu Lübeck/UKSH Schrift führerin: Dr. rer. nat. Simone Heidemann, Kiel Ratzeburger Allee 160, Haus 72 23538 Lübeck Österreichische Gesellschaft für Humangenetik (ÖGH) Telefon: 0049-451-500-2620 Univ. Prof. Dr. med. univ. Michael Speicher, Graz (Vorsitzender) Fax: 0049-451-500-4187 Univ. Doz. Dr. med. univ. Hans-Christoph Duba, Linz (Stellvertre- tende Vorsitzende) Tagungsorganisation Univ.-Prof. DDr. med. univ. Johannes Zschocke, Innsbruck (Stellvertretende Vorsitzende) Dr. Christine Scholz (Leitung) Dr. Gerald Webersinke, Linz (Schrift führer) Brigitte Fiedler (Teilnehmerregistrierung) Ass.-Prof. Priv. Doz. Dr. med. univ. Franco Laccone, Wien (Stellver- Deutsche Gesellschaft für Humangenetik e.