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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. -
Protein Identities in Evs Isolated from U87-MG GBM Cells As Determined by NG LC-MS/MS
Protein identities in EVs isolated from U87-MG GBM cells as determined by NG LC-MS/MS. No. Accession Description Σ Coverage Σ# Proteins Σ# Unique Peptides Σ# Peptides Σ# PSMs # AAs MW [kDa] calc. pI 1 A8MS94 Putative golgin subfamily A member 2-like protein 5 OS=Homo sapiens PE=5 SV=2 - [GG2L5_HUMAN] 100 1 1 7 88 110 12,03704523 5,681152344 2 P60660 Myosin light polypeptide 6 OS=Homo sapiens GN=MYL6 PE=1 SV=2 - [MYL6_HUMAN] 100 3 5 17 173 151 16,91913397 4,652832031 3 Q6ZYL4 General transcription factor IIH subunit 5 OS=Homo sapiens GN=GTF2H5 PE=1 SV=1 - [TF2H5_HUMAN] 98,59 1 1 4 13 71 8,048185945 4,652832031 4 P60709 Actin, cytoplasmic 1 OS=Homo sapiens GN=ACTB PE=1 SV=1 - [ACTB_HUMAN] 97,6 5 5 35 917 375 41,70973209 5,478027344 5 P13489 Ribonuclease inhibitor OS=Homo sapiens GN=RNH1 PE=1 SV=2 - [RINI_HUMAN] 96,75 1 12 37 173 461 49,94108966 4,817871094 6 P09382 Galectin-1 OS=Homo sapiens GN=LGALS1 PE=1 SV=2 - [LEG1_HUMAN] 96,3 1 7 14 283 135 14,70620005 5,503417969 7 P60174 Triosephosphate isomerase OS=Homo sapiens GN=TPI1 PE=1 SV=3 - [TPIS_HUMAN] 95,1 3 16 25 375 286 30,77169764 5,922363281 8 P04406 Glyceraldehyde-3-phosphate dehydrogenase OS=Homo sapiens GN=GAPDH PE=1 SV=3 - [G3P_HUMAN] 94,63 2 13 31 509 335 36,03039959 8,455566406 9 Q15185 Prostaglandin E synthase 3 OS=Homo sapiens GN=PTGES3 PE=1 SV=1 - [TEBP_HUMAN] 93,13 1 5 12 74 160 18,68541938 4,538574219 10 P09417 Dihydropteridine reductase OS=Homo sapiens GN=QDPR PE=1 SV=2 - [DHPR_HUMAN] 93,03 1 1 17 69 244 25,77302971 7,371582031 11 P01911 HLA class II histocompatibility antigen, -
SRM Phd Dissertation FINAL
UCSF UC San Francisco Electronic Theses and Dissertations Title The mechanistic role of the clathrin light chain subunits in cell function Permalink https://escholarship.org/uc/item/9cj4b9dx Author Majeed, Sophia Rafaa Publication Date 2015 Peer reviewed|Thesis/dissertation eScholarship.org Powered by the California Digital Library University of California The mechanistic role of the clathrin light subunits in cell function by Sophia R. Majeed DISSERTATION Submitted in partial satisfaction of the requirements for the degree of DOCTOR OF PHILOSOPHY in Pharmaceutical Sciences and Pharmacogenomics in the GRADUATE DIVISION of the UNIVERSITY OF CALIFORNIA, SAN FRANCISCO Copyright 2015 By Sophia Rafaa Majeed ! ii! Acknowledgements ! I would like to thank my PhD thesis advisor, Dr. Frances Brodsky, for all of her support and scientific guidance throughout my time in graduate school. Frances has provided me with mentorship when I needed it, and has given me the freedom to think independently and pursue my own scientific ideas. She has constantly challenged me to think creatively and tackle big problems that don’t have simple answers. As a woman and as a scientist, Frances has inspired me to persevere in the face of challenges. She has taught me that even the most insurmountable difficulties can be overcome with the right combination of diligence, passion and determination. Thank you for providing me with the tools to become a critical and creative independent researcher. I would like to thank my other mentors who have had a profound impact on me, both on a scientific and personal level, during my time at UCSF. I would like to thank Drs. -
WO 2019/079361 Al 25 April 2019 (25.04.2019) W 1P O PCT
(12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization I International Bureau (10) International Publication Number (43) International Publication Date WO 2019/079361 Al 25 April 2019 (25.04.2019) W 1P O PCT (51) International Patent Classification: CA, CH, CL, CN, CO, CR, CU, CZ, DE, DJ, DK, DM, DO, C12Q 1/68 (2018.01) A61P 31/18 (2006.01) DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, C12Q 1/70 (2006.01) HR, HU, ID, IL, IN, IR, IS, JO, JP, KE, KG, KH, KN, KP, KR, KW, KZ, LA, LC, LK, LR, LS, LU, LY, MA, MD, ME, (21) International Application Number: MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, PCT/US2018/056167 OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SA, (22) International Filing Date: SC, SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, 16 October 2018 (16. 10.2018) TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. (25) Filing Language: English (84) Designated States (unless otherwise indicated, for every kind of regional protection available): ARIPO (BW, GH, (26) Publication Language: English GM, KE, LR, LS, MW, MZ, NA, RW, SD, SL, ST, SZ, TZ, (30) Priority Data: UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, 62/573,025 16 October 2017 (16. 10.2017) US TM), European (AL, AT, BE, BG, CH, CY, CZ, DE, DK, EE, ES, FI, FR, GB, GR, HR, HU, ΓΕ , IS, IT, LT, LU, LV, (71) Applicant: MASSACHUSETTS INSTITUTE OF MC, MK, MT, NL, NO, PL, PT, RO, RS, SE, SI, SK, SM, TECHNOLOGY [US/US]; 77 Massachusetts Avenue, TR), OAPI (BF, BJ, CF, CG, CI, CM, GA, GN, GQ, GW, Cambridge, Massachusetts 02139 (US). -
Since January 2020 Elsevier Has Created a COVID-19 Resource Centre with Free Information in English and Mandarin on the Novel Coronavirus COVID- 19
Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID- 19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active. Available online at www.sciencedirect.com ScienceDirect Editorial overview: Membrane traffic in the time of COVID-19 Frances M. Brodsky and Jennifer L. Stow Current Opinion in Cell Biology 2020, 65:iii–v This overview comes from a themed issue on Membrane Trafficking Edited by Frances M. Brodsky and Jennifer L. Stow https://doi.org/10.1016/j.ceb.2020.09.003 0955-0674/© 2020 Published by Elsevier Ltd. Frances M. Brodsky We write this editorial emerging from lockdown in countries across the Division of Biosciences, University College world in the face of the COVID-19 pandemic. These have been chal- London, Gower Street, London, WC1E 6BT, lenging, frightening, and too often catastrophic times for many. Such times UK lead to evaluation of one’s own enterprise in the context of a global *Corresponding author: Brodsky, Frances M. -
Supplementary Table S4. FGA Co-Expressed Gene List in LUAD
Supplementary Table S4. FGA co-expressed gene list in LUAD tumors Symbol R Locus Description FGG 0.919 4q28 fibrinogen gamma chain FGL1 0.635 8p22 fibrinogen-like 1 SLC7A2 0.536 8p22 solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 DUSP4 0.521 8p12-p11 dual specificity phosphatase 4 HAL 0.51 12q22-q24.1histidine ammonia-lyase PDE4D 0.499 5q12 phosphodiesterase 4D, cAMP-specific FURIN 0.497 15q26.1 furin (paired basic amino acid cleaving enzyme) CPS1 0.49 2q35 carbamoyl-phosphate synthase 1, mitochondrial TESC 0.478 12q24.22 tescalcin INHA 0.465 2q35 inhibin, alpha S100P 0.461 4p16 S100 calcium binding protein P VPS37A 0.447 8p22 vacuolar protein sorting 37 homolog A (S. cerevisiae) SLC16A14 0.447 2q36.3 solute carrier family 16, member 14 PPARGC1A 0.443 4p15.1 peroxisome proliferator-activated receptor gamma, coactivator 1 alpha SIK1 0.435 21q22.3 salt-inducible kinase 1 IRS2 0.434 13q34 insulin receptor substrate 2 RND1 0.433 12q12 Rho family GTPase 1 HGD 0.433 3q13.33 homogentisate 1,2-dioxygenase PTP4A1 0.432 6q12 protein tyrosine phosphatase type IVA, member 1 C8orf4 0.428 8p11.2 chromosome 8 open reading frame 4 DDC 0.427 7p12.2 dopa decarboxylase (aromatic L-amino acid decarboxylase) TACC2 0.427 10q26 transforming, acidic coiled-coil containing protein 2 MUC13 0.422 3q21.2 mucin 13, cell surface associated C5 0.412 9q33-q34 complement component 5 NR4A2 0.412 2q22-q23 nuclear receptor subfamily 4, group A, member 2 EYS 0.411 6q12 eyes shut homolog (Drosophila) GPX2 0.406 14q24.1 glutathione peroxidase -
STX Stainless Steel Boxes Characteristics Enclosure and Door Manufactured from AISI 304 Stainless Steel (AISI 316 on Request)
STX stainless steel boxes characteristics Enclosure and door manufactured from AISI 304 stainless steel (AISI 316 on request). Mounting plate manufactured from 2.5mm sendzimir sheet steel. Hinge in stainless steel. composition Box complete with: • mounting plate • locking system body in zinc alloy and lever in stainless steel with Ø 3mm double bar key • package with hardware for earth connection and screws to mounting plate. conformity and approval protection degree • IP 65 complying with EN50298; EN60529 for box with single blank door • IP 55 complying with EN50298; EN60529 for box with double blank door • type 12, 4, 4X complying with UL508A; UL50 • impact resistance IK10 complying with EN50298; EN50102. box with single blank door code B A P C D E F weight kg mod. art. STX2 315 200 300 150 150 250 * 219 6 STX3 415 300 400 150 250 350 215 319 9,5 STX3 420 300 400 200 250 350 215 319 11 STX4 315 400 300 150 350 250 315 219 9,5 STX4 420 400 400 200 350 350 315 319 13,5 STX4 520 400 500 200 350 450 315 419 15,5 STX4 620 400 600 200 350 550 315 519 18 STX5 520 500 500 200 450 450 415 419 18 STX5 725 500 700 250 450 650 415 619 27 STX6 420 600 400 200 550 350 315 519 17,3 STX6 620 600 600 200 550 550 515 519 24,5 STX6 625 600 600 250 550 550 515 519 27 STX6 630 600 600 300 550 550 515 519 30 STX6 820 600 800 200 550 750 515 719 31 STX6 825 600 800 250 550 750 515 719 34 STX6 830 600 800 300 550 750 515 719 37 STX6 1230 600 1200 300 550 1150 515 1119 54 STX8 830 800 800 300 750 750 715 719 48 STX8 1030 800 1000 300 750 950 715 919 58 STX8 1230 800 1200 300 750 1150 715 1119 67 * B=200 M6 studs welded only on the hinge side. -
Acid Sphingomyelinase Regulates the Localization and Trafficking of Palmitoylated Proteins
Chemistry and Biochemistry Faculty Publications Chemistry and Biochemistry 5-29-2019 Acid Sphingomyelinase Regulates the Localization and Trafficking of Palmitoylated Proteins Xiahui Xiong University of Nevada, Las Vegas, [email protected] Chia-Fang Lee Protea Biosciences Wenjing Li University of Nevada, Las Vegas, [email protected] Jiekai Yu University of Nevada, Las Vegas, [email protected] Linyu Zhu University of Nevada, Las Vegas SeeFollow next this page and for additional additional works authors at: https:/ /digitalscholarship.unlv.edu/chem_fac_articles Part of the Biochemistry, Biophysics, and Structural Biology Commons Repository Citation Xiong, X., Lee, C., Li, W., Yu, J., Zhu, L., Kim, Y., Zhang, H., Sun, H. (2019). Acid Sphingomyelinase Regulates the Localization and Trafficking of Palmitoylated Proteins. Biology Open 1-56. Company of Biologists. http://dx.doi.org/10.1242/bio.040311 This Article is protected by copyright and/or related rights. It has been brought to you by Digital Scholarship@UNLV with permission from the rights-holder(s). You are free to use this Article in any way that is permitted by the copyright and related rights legislation that applies to your use. For other uses you need to obtain permission from the rights-holder(s) directly, unless additional rights are indicated by a Creative Commons license in the record and/ or on the work itself. This Article has been accepted for inclusion in Chemistry and Biochemistry Faculty Publications by an authorized administrator of Digital Scholarship@UNLV. For -
Integrative Clinical Sequencing in the Management of Refractory Or
Supplementary Online Content Mody RJ, Wu Y-M, Lonigro RJ, et al. Integrative Clinical Sequencing in the Management of Children and Young Adults With Refractory or Relapsed CancerJAMA. doi:10.1001/jama.2015.10080. eAppendix. Supplementary appendix This supplementary material has been provided by the authors to give readers additional information about their work. © 2015 American Medical Association. All rights reserved. Downloaded From: https://jamanetwork.com/ on 09/29/2021 SUPPLEMENTARY APPENDIX Use of Integrative Clinical Sequencing in the Management of Pediatric Cancer Patients *#Rajen J. Mody, M.B.B.S, M.S., *Yi-Mi Wu, Ph.D., Robert J. Lonigro, M.S., Xuhong Cao, M.S., Sameek Roychowdhury, M.D., Ph.D., Pankaj Vats, M.S., Kevin M. Frank, M.S., John R. Prensner, M.D., Ph.D., Irfan Asangani, Ph.D., Nallasivam Palanisamy Ph.D. , Raja M. Rabah, M.D., Jonathan R. Dillman, M.D., Laxmi Priya Kunju, M.D., Jessica Everett, M.S., Victoria M. Raymond, M.S., Yu Ning, M.S., Fengyun Su, Ph.D., Rui Wang, M.S., Elena M. Stoffel, M.D., Jeffrey W. Innis, M.D., Ph.D., J. Scott Roberts, Ph.D., Patricia L. Robertson, M.D., Gregory Yanik, M.D., Aghiad Chamdin, M.D., James A. Connelly, M.D., Sung Choi, M.D., Andrew C. Harris, M.D., Carrie Kitko, M.D., Rama Jasty Rao, M.D., John E. Levine, M.D., Valerie P. Castle, M.D., Raymond J. Hutchinson, M.D., Moshe Talpaz, M.D., ^Dan R. Robinson, Ph.D., and ^#Arul M. Chinnaiyan, M.D., Ph.D. CORRESPONDING AUTHOR (S): # Arul M. -
Altered Gene Expression and PTSD Symptom Dimensions in World Trade Center Responders
medRxiv preprint doi: https://doi.org/10.1101/2021.03.05.21252989; this version posted March 12, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license . 1 Altered gene expression and PTSD symptom dimensions in World Trade Center responders 2 3 Shelby Marchese1, Leo Cancelmo2, Olivia Diab2, Leah Cahn2, Cindy Aaronson2, Nikolaos P. 4 Daskalakis2,3, Jamie Schaffer2, Sarah R Horn2, Jessica S. Johnson1, Clyde Schechter4, Frank Desarnaud2,5, 5 Linda M Bierer2,5, Iouri Makotkine2,5, Janine D Flory2,5, Michael Crane6, Jacqueline M. Moline7, Iris 6 G. Udasin8, Denise J. Harrison9, Panos Roussos1,2,10-12, Dennis S. Charney2,13,14, Karestan C Koenen15- 7 17, Steven M. Southwick18-19, Rachel Yehuda2,5, Robert H. Pietrzak18-19, Laura M. Huckins1,2,10- 8 12,20*, Adriana Feder2* (* equal contribution) 9 10 1 Pamela Sklar Division of Psychiatric Genomics, Icahn School of Medicine at Mount Sinai, New York, 11 NY 10029, USA 12 2 Department of Psychiatry, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA 13 3 Department of Psychiatry, McLean Hospital, Harvard Medical School, Belmont, Massachusetts, USA 14 4 Department of Family and Social Medicine, Albert Einstein College of Medicine of Yeshiva 15 University, Bronx, NY, USA 16 5 Department of Psychiatry, James J. Peters Veterans Affairs Medical Center, Bronx, New York, USA 17 6 Department of Environmental -
Lysosomes & Endocytosis
Lysosomes & Endocytosis Gordon Research Conference Molecular Mechanisms and Functions of Endosomal and Lysosomal Pathways June 12-17, 2016 Proctor Academy Andover, NH Chair: Roberto Weigert Vice Chair: Lois S. Weisman Contributors Meeting Program Sunday 2:00 pm - 9:00 pm Arrival and Check-in 6:00 pm Dinner 7:30 pm - 7:40 pm Welcome / Introductory Comments by GRC Site Staff 7:40 pm - 9:30 pm Endocytic Machinery at the Plasma Membrane Discussion Leaders: Sandra Schmid (University of Texas Southwestern Medical Center, USA) and Mark Von Zastrow (University of California, San Francisco, USA) 7:40 pm - 8:00 pm Volker Haucke (Leibniz-Institut für Molekulare Pharmakologie, Germany) "Phosphoinositide Conversion Within the Endolysosomal System" 8:00 pm - 8:10 pm Discussion 8:10 pm - 8:30 pm Ludger Johannes (Institut Curie, France) "Using Glycosphingolipids to Build Endocytic Pits in Clathrin-Independent Endocytosis" 8:30 pm - 8:40 pm Discussion 8:40 pm - 9:00 pm Margaret Robinson (University of Cambridge, United Kingdom) "Coated Vesicle Adaptors" 9:00 pm - 9:10 pm Discussion 9:10 pm - 9:25 pm Sara Sigismund (IFOM, The FIRC Institute for Molecular Oncology Foundation, Italy) "ER-PM Contact Sites Control EGFR Endocytosis" 9:25 pm - 9:30 pm Discussion Monday 7:30 am - 8:30 am Breakfast 9:00 am - 12:30 pm Endosomal Sorting and Recycling Discussion Leaders: Elizabeth Conibear (University of British Columbia, Canada) and Scott Emr (Cornell University, USA) 9:00 am - 9:20 am Peter Cullen (University of Bristol, United Kingdom) "Molecular Mechanisms of -
Binding and Immunoprecipitation (Phytohemagglutinin/HLA-DR Antigens/HLA-A, -B Antigens) JORDAN S
Proc. NatL Acad. Sci. USA Vol. 79, pp. 6641-6645, November 1982 Immunology Expression of Ia-like antigens by human vascular endothelial cells is inducible in vitro: Demonstration by monoclonal antibody binding and immunoprecipitation (phytohemagglutinin/HLA-DR antigens/HLA-A, -B antigens) JORDAN S. POBER AND MICHAEL A. GIMBRONE, JR. Laboratory ofVascular Pathophysiology, Departments of Pathology, Brigham and Women's Hospital and Harvard Medical School, Boston, Massachusetts 02115 Communicated by Baruj Benacerraf, July 6, 1982 ABSTRACT The expression of Ia-like antigens by cultured clonal antibodies has suggested that endothelial cells may lack human endothelial cells has been investigated by means ofmono- Ia-like antigens (16). clonal antibody binding to intact cells and by immunoprecipitation The expression of HLA-DR or other Ia-like antigens by vas- ofradioiodinated membrane proteins. Primary growing and con- cular endothelium would have at least two important biological fluent cultures of human umbilical vein endothelium express lit- implications. First, the presence of Ia-like antigen-bearing en- tle, ifany, detectable Ia-like antigens under standard culture con- dothelial cells within an organ graft could significantly enhance ditions. However, treatment of primary cultures with the lectin its immunogenicity and hence its likelihood of transplant re- phytohemagglutinin induces the expression of Ia-like antigens. jection (17). In the mixed reaction, a model oftrans- This action of the lectin uniformly affects all the endothelial cells lymphocyte in a culture, does notdepend on cell division, and is associated with plant rejection, Ia-like antigens on the stimulator lymphocyte a cell shape change. The data presented in this report provide population serve as the major provokers ofallogeneic responder unequivocal serological and biochemical demonstration of Ia-like lymphocyte proliferation (18).