Human B Cell to Plasma Cell Differentiation Preplasmablast
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Screening and Identification of Key Biomarkers in Clear Cell Renal Cell Carcinoma Based on Bioinformatics Analysis
bioRxiv preprint doi: https://doi.org/10.1101/2020.12.21.423889; this version posted December 23, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Screening and identification of key biomarkers in clear cell renal cell carcinoma based on bioinformatics analysis Basavaraj Vastrad1, Chanabasayya Vastrad*2 , Iranna Kotturshetti 1. Department of Biochemistry, Basaveshwar College of Pharmacy, Gadag, Karnataka 582103, India. 2. Biostatistics and Bioinformatics, Chanabasava Nilaya, Bharthinagar, Dharwad 580001, Karanataka, India. 3. Department of Ayurveda, Rajiv Gandhi Education Society`s Ayurvedic Medical College, Ron, Karnataka 562209, India. * Chanabasayya Vastrad [email protected] Ph: +919480073398 Chanabasava Nilaya, Bharthinagar, Dharwad 580001 , Karanataka, India bioRxiv preprint doi: https://doi.org/10.1101/2020.12.21.423889; this version posted December 23, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Abstract Clear cell renal cell carcinoma (ccRCC) is one of the most common types of malignancy of the urinary system. The pathogenesis and effective diagnosis of ccRCC have become popular topics for research in the previous decade. In the current study, an integrated bioinformatics analysis was performed to identify core genes associated in ccRCC. An expression dataset (GSE105261) was downloaded from the Gene Expression Omnibus database, and included 26 ccRCC and 9 normal kideny samples. Assessment of the microarray dataset led to the recognition of differentially expressed genes (DEGs), which was subsequently used for pathway and gene ontology (GO) enrichment analysis. -
Atlas Antibodies in Breast Cancer Research Table of Contents
ATLAS ANTIBODIES IN BREAST CANCER RESEARCH TABLE OF CONTENTS The Human Protein Atlas, Triple A Polyclonals and PrecisA Monoclonals (4-5) Clinical markers (6) Antibodies used in breast cancer research (7-13) Antibodies against MammaPrint and other gene expression test proteins (14-16) Antibodies identified in the Human Protein Atlas (17-14) Finding cancer biomarkers, as exemplified by RBM3, granulin and anillin (19-22) Co-Development program (23) Contact (24) Page 2 (24) Page 3 (24) The Human Protein Atlas: a map of the Human Proteome The Human Protein Atlas (HPA) is a The Human Protein Atlas consortium cell types. All the IHC images for Swedish-based program initiated in is mainly funded by the Knut and Alice the normal tissue have undergone 2003 with the aim to map all the human Wallenberg Foundation. pathology-based annotation of proteins in cells, tissues and organs expression levels. using integration of various omics The Human Protein Atlas consists of technologies, including antibody- six separate parts, each focusing on References based imaging, mass spectrometry- a particular aspect of the genome- 1. Sjöstedt E, et al. (2020) An atlas of the based proteomics, transcriptomics wide analysis of the human proteins: protein-coding genes in the human, pig, and and systems biology. mouse brain. Science 367(6482) 2. Thul PJ, et al. (2017) A subcellular map of • The Tissue Atlas shows the the human proteome. Science. 356(6340): All the data in the knowledge resource distribution of proteins across all eaal3321 is open access to allow scientists both major tissues and organs in the 3. -
View Is Portrayed Schematically in Figure 7B
BASIC RESEARCH www.jasn.org Recombination Signal Binding Protein for Ig-kJ Region Regulates Juxtaglomerular Cell Phenotype by Activating the Myo-Endocrine Program and Suppressing Ectopic Gene Expression † † ‡ Ruth M. Castellanos-Rivera,* Ellen S. Pentz,* Eugene Lin,* Kenneth W. Gross, † Silvia Medrano,* Jing Yu,§ Maria Luisa S. Sequeira-Lopez,* and R. Ariel Gomez* *Department of Pediatrics, School of Medicine, †Department of Biology, Graduate School of Arts and Sciences, and §Department of Cell Biology, University of Virginia, Charlottesville, Virginia; and ‡Department of Molecular and Cellular Biology, Roswell Park Cancer Institute, Buffalo, New York ABSTRACT Recombination signal binding protein for Ig-kJ region (RBP-J), the major downstream effector of Notch signaling, is necessary to maintain the number of renin-positive juxtaglomerular cells and the plasticity of arteriolar smooth muscle cells to re-express renin when homeostasis is threatened. We hypothesized that RBP-J controls a repertoire of genes that defines the phenotype of the renin cell. Mice bearing a bacterial artificial chromosome reporter with a mutated RBP-J binding site in the renin promoter had markedly reduced reporter expression at the basal state and in response to a homeostatic challenge. Mice with conditional deletion of RBP-J in renin cells had decreased expression of endocrine (renin and Akr1b7)and smooth muscle (Acta2, Myh11, Cnn1,andSmtn) genes and regulators of smooth muscle expression (miR- 145, SRF, Nfatc4, and Crip1). To determine whether RBP-J deletion decreased the endowment of renin cells, we traced the fate of these cells in RBP-J conditional deletion mice. Notably, the lineage staining patterns in mutant and control kidneys were identical, although mutant kidneys had fewer or no renin- expressing cells in the juxtaglomerular apparatus. -
CD38, CD157, and RAGE As Molecular Determinants for Social Behavior
cells Review CD38, CD157, and RAGE as Molecular Determinants for Social Behavior Haruhiro Higashida 1,2,* , Minako Hashii 1,3, Yukie Tanaka 4, Shigeru Matsukawa 5, Yoshihiro Higuchi 6, Ryosuke Gabata 1, Makoto Tsubomoto 1, Noriko Seishima 1, Mitsuyo Teramachi 1, Taiki Kamijima 1, Tsuyoshi Hattori 7, Osamu Hori 7 , Chiharu Tsuji 1, Stanislav M. Cherepanov 1 , Anna A. Shabalova 1, Maria Gerasimenko 1, Kana Minami 1, Shigeru Yokoyama 1, Sei-ichi Munesue 8, Ai Harashima 8, Yasuhiko Yamamoto 8, Alla B. Salmina 1,2 and Olga Lopatina 2 1 Department of Basic Research on Social Recognition and Memory, Research Center for Child Mental Development, Kanazawa University, Kanazawa 920-8640, Japan; [email protected] (M.H.); [email protected] (R.G.); [email protected] (M.T.); [email protected] (N.S.); [email protected] (M.T.); [email protected] (T.K.); [email protected] (C.T.); [email protected] (S.M.C.); [email protected] (A.A.S.); [email protected] (M.G.); minami-k@staff.kanazawa-u.ac.jp (K.M.); [email protected] (S.Y.) 2 Laboratory of Social Brain Study, Research Institute of Molecular Medicine and Pathobiochemistry, Krasnoyarsk State Medical University named after Prof. V.F. Voino-Yasenetsky, Krasnoyarsk 660022, Russia; [email protected] (A.B.S.); [email protected] (O.L.) 3 Division of Molecular Genetics and Clinical Research, National Hospital Organization Nanao Hospital, Nanao 926-0841, Japan 4 Molecular Biology and Chemistry, Faculty of Medical Science, University of Fukui, Fukui -
Dysregulated CD38 Expression on Peripheral Blood Immune Cell Subsets in SLE
International Journal of Molecular Sciences Article Dysregulated CD38 Expression on Peripheral Blood Immune Cell Subsets in SLE Marie Burns 1,†, Lennard Ostendorf 1,2,3,† , Robert Biesen 1,2 , Andreas Grützkau 1, Falk Hiepe 1,2, Henrik E. Mei 1,† and Tobias Alexander 1,2,*,† 1 Deutsches Rheuma-Forschungszentrum (DRFZ Berlin), a Leibniz Institute, 10117 Berlin, Germany; [email protected] (M.B.); [email protected] (L.O.); [email protected] (R.B.); [email protected] (A.G.); [email protected] (F.H.); [email protected] (H.E.M.) 2 Department of Rheumatology and Clinical Immunology, Charité–Universitätsmedizin Berlin, Corporate Member of Freie Universität Berlin, Humboldt-Universität zu Berlin and The Berlin Institute of Health (BIH), 10117 Berlin, Germany 3 Department of Nephrology and Intensive Care Medicine, Charité–Universitätsmedizin Berlin, Corporate Member of Freie Universität Berlin, Humboldt-Universität zu Berlin and The Berlin Institute of Health (BIH), 10117 Berlin, Germany * Correspondence: [email protected] † Authors contributed equally to this manuscript. Abstract: Given its uniformly high expression on plasma cells, CD38 has been considered as a therapeutic target in patients with systemic lupus erythematosus (SLE). Herein, we investigate the distribution of CD38 expression by peripheral blood leukocyte lineages to evaluate the potential therapeutic effect of CD38-targeting antibodies on these immune cell subsets and to delineate the use of CD38 as a biomarker in SLE. We analyzed the expression of CD38 on peripheral blood leukocyte subsets by flow and mass cytometry in two different cohorts, comprising a total of 56 SLE patients. The CD38 expression levels were subsequently correlated across immune cell lineages and subsets, Citation: Burns, M.; Ostendorf, L.; and with clinical and serologic disease parameters of SLE. -
CD Markers Are Routinely Used for the Immunophenotyping of Cells
ptglab.com 1 CD MARKER ANTIBODIES www.ptglab.com Introduction The cluster of differentiation (abbreviated as CD) is a protocol used for the identification and investigation of cell surface molecules. So-called CD markers are routinely used for the immunophenotyping of cells. Despite this use, they are not limited to roles in the immune system and perform a variety of roles in cell differentiation, adhesion, migration, blood clotting, gamete fertilization, amino acid transport and apoptosis, among many others. As such, Proteintech’s mini catalog featuring its antibodies targeting CD markers is applicable to a wide range of research disciplines. PRODUCT FOCUS PECAM1 Platelet endothelial cell adhesion of blood vessels – making up a large portion molecule-1 (PECAM1), also known as cluster of its intracellular junctions. PECAM-1 is also CD Number of differentiation 31 (CD31), is a member of present on the surface of hematopoietic the immunoglobulin gene superfamily of cell cells and immune cells including platelets, CD31 adhesion molecules. It is highly expressed monocytes, neutrophils, natural killer cells, on the surface of the endothelium – the thin megakaryocytes and some types of T-cell. Catalog Number layer of endothelial cells lining the interior 11256-1-AP Type Rabbit Polyclonal Applications ELISA, FC, IF, IHC, IP, WB 16 Publications Immunohistochemical of paraffin-embedded Figure 1: Immunofluorescence staining human hepatocirrhosis using PECAM1, CD31 of PECAM1 (11256-1-AP), Alexa 488 goat antibody (11265-1-AP) at a dilution of 1:50 anti-rabbit (green), and smooth muscle KD/KO Validated (40x objective). alpha-actin (red), courtesy of Nicola Smart. PECAM1: Customer Testimonial Nicola Smart, a cardiovascular researcher “As you can see [the immunostaining] is and a group leader at the University of extremely clean and specific [and] displays Oxford, has said of the PECAM1 antibody strong intercellular junction expression, (11265-1-AP) that it “worked beautifully as expected for a cell adhesion molecule.” on every occasion I’ve tried it.” Proteintech thanks Dr. -
The Enzymatic Activities of CD38 Enhance CLL Growth and Trafficking
Leukemia (2015) 29, 356–368 © 2015 Macmillan Publishers Limited All rights reserved 0887-6924/15 www.nature.com/leu ORIGINAL ARTICLE The enzymatic activities of CD38 enhance CLL growth and trafficking: implications for therapeutic targeting T Vaisitti1,2, V Audrito1,2, S Serra1,2, R Buonincontri1,2, G Sociali3, E Mannino3, A Pagnani2, A Zucchetto4, E Tissino4, C Vitale5, M Coscia5, C Usai6, C Pepper7, V Gattei4, S Bruzzone3 and S Deaglio1,2 The ecto-enzyme CD38 is gaining momentum as a novel therapeutic target for patients with hematological malignancies, with several anti-CD38 monoclonal antibodies in clinical trials with promising results. In chronic lymphocytic leukemia (CLL) CD38 is a marker of unfavorable prognosis and a central factor in the pathogenetic network underlying the disease: activation of CD38 regulates genetic pathways involved in proliferation and movement. Here we show that CD38 is enzymatically active in primary CLL cells and that its forced expression increases disease aggressiveness in a xenograft model. The effect is completely lost when using an enzyme-deficient version of CD38 with a single amino-acid mutation. Through the enzymatic conversion of NAD into ADPR (ADP-ribose) and cADPR (cyclic ADP-ribose), CD38 increases cytoplasmic Ca2+ concentrations, positively influencing proliferation and signaling mediated via chemokine receptors or integrins. Consistently, inhibition of the enzymatic activities of CD38 using the flavonoid kuromanin blocks CLL chemotaxis, adhesion and in vivo homing. In a short-term xenograft model using primary cells, kuromanin treatment traps CLL cells in the blood, thereby increasing responses to chemotherapy. These results suggest that monoclonal antibodies that block the enzymatic activities of CD38 or enzyme inhibitors may prove therapeutically useful. -
Page 1 Supplemental Table I Upin WTVG Upin Humlowfb FAR1
Supplemental Table I UPinWTvG UPinHuMlowFB overlap FAR1 CD209 PLEKHO2 B2M IL27 GCLC CALR HMGN2P46 ME1 XPO1 CLEC1A NEK6 PDIA3 HSD17B14 TMEM106A SERPINH1 NSUN7 KCNJ15 PLEKHO2 SEMA6B SH3PXD2B HSPD1 BAALC RHOU SYVN1 CEACAM4 TGFBI DNAJB9 KATNAL2 CTSZ SLC25A19 CCDC175 SULF2 MHCII CARD14 P2RY6 MDN1 TDO2 CD74 GCLC FCAR HLA-DQB1 PTPN2 GLDN CD14 CHORDC1 MMP7 CSF2RB LOX CLEC5A MRC1 STIP1 ZMYND15 ITGAX BPIFB1 ITLN1 SLAMF7 ME1 DKK2 CD84 PDIA6 FAM124A FCGR2A HYOU1 F3 CLEC10A NLRC5 DZIP1L IFI30 NEK6 CECR6 CLEC4A SLC39A14 NDP CLEC7A TMEM106AFCGR1A TFEC KCNJ15 CCL7 C1QC SH3PXD2B CRABP2 C1QA RHOU PIPOX FOLR2 LRP2 CCL2 CH25H MVD VSIG4 C1QB TGFBI LINC01010 SIGLEC1 NFKB2 DPRXP4 CTSS C5 FAM20A CCR1 HSP90B1 ANKRD29 SLAMF8 ALDH18A1 OCSTAMP MS4A7 EDEM1 TGM2 HK3 CTSZ TM4SF19 CXCL10 C6 TRPV4 CTSK AACS CCL8 MSR1 PPA1 CCL1 STEAP4 PIK3R5 KCNE1 CXCL9 RASAL3 SLC9A7P1 MS4A6A DOCK11 CHI3L1 TIMP1 BHLHE40 LOC731424 CD209 HCLS1 DCSTAMP CCL7 FASN MSR1 PDCD1LG2 PDIA4 IL31RA CCL2 ITK CXCL3 CXCL2 CRELD2 TREM2 C15orf48 SFTPD MGST1 GPR84 BCL3 METTL7B CXCL5 SULF2 TMEM86A OCSTAMP CYP51A1 A2M SERPINA1 CREB3L1 AQP9 MMP12 DUSP2 NUPR1 CCL8 ADAM8 FHAD1 CCL24 P2RY6 YPEL4 FBP1 KCNAB2 FBP1 NA NFKBIE LOC100506585 NA FSCN1 CXCL16 NA MANF RAB13 NA SLC5A3 LOC391322 NA CTSC IL8 NA COTL1 MS4A4A NA HSPA5 SERPING1 NA MUC5B PLA2G4C NA CD74 CA12 NA HLA-DQB1 GBP1P1 NA SLC7A2 C11orf45 NA FABP5 ACVRL1 NA CIITA SPP1 NA RAB3IL1 TLN2 NA HSPE1 NDRG2 NA SCD C15orf48 NA ITIH4 KCNJ15 NA SERPINA3 MEIS3P1 NA LAG3 IL1RN NA FOXM1 HNMT NA CD14 CYP27B1 NA RRM2 CDCP1 NA ABCD2 FOLR2 NA FCRL2 ECM1 NA PDE3B ADAMDEC1 -
(12) Patent Application Publication (10) Pub. No.: US 2014/0304845 A1 Loboda Et Al
US 201403.04845A1 (19) United States (12) Patent Application Publication (10) Pub. No.: US 2014/0304845 A1 Loboda et al. (43) Pub. Date: Oct. 9, 2014 54) ALZHEMIERS DISEASE SIGNATURE Publicationublication ClassificatiClassification MARKERS AND METHODS OF USE (51) Int. Cl. (71) Applicant: MERCKSHARP & DOHME CORP, CI2O I/68 (2006.01) Rahway, NJ (US) AOIK 67/027 (2006.01) (52) U.S. Cl. (72) Inventors: SIES yet.sS); CPC .......... CI2O I/6883 (2013.01); A0IK 67/0275 Icnaei NepoZnyn, Yeadon, (2013.01) le.East,Italia; David J. Stone, Wyncote, USPC .............. 800/12:536/23.5:536/23.2:506/17 (US); Keith Tanis, Quakertown, PA (US); William J. Ray, Juniper, FL (US) (57) ABSTRACT (21) Appl. No.: 14/354,622 Methods, biomarkers, and expression signatures are dis 1-1. closed for assessing the disease progression of Alzheimer's (22) PCT Filed: Oct. 26, 2012 disease (AD). In one embodiment, BioAge (biological age), NdStress (neurodegenerative stress), Alz (Alzheimer), and (86). PCT No.: PCT/US12A62218 Inflame (inflammation) are used as biomarkers of AD pro S371 (c)(1), gression. In another aspect, the invention comprises a gene (2), (4) Date: Apr. 28, 2014 signature for evaluating disease progression. In still another Related U.S. Application Data abiliticises in (60) Provisional application No. 61/553,400, filed on Oct. used to identify animal models for use in the development and 31, 2011. evaluation of therapeutics for the treatment of AD. Patent Application Publication Oct. 9, 2014 Sheet 1 of 16 US 2014/0304845 A1 Y : : O O O O O O O O D O v v CN On cy Patent Application Publication Oct. -
Monoclonal Antibodies in Myeloma
Monoclonal Antibodies in Myeloma Pia Sondergeld, PhD, Niels W. C. J. van de Donk, MD, PhD, Paul G. Richardson, MD, and Torben Plesner, MD Dr Sondergeld is a medical student at the Abstract: The development of monoclonal antibodies (mAbs) for University of Giessen in Giessen, Germany. the treatment of disease goes back to the vision of Paul Ehrlich in Dr van de Donk is a hematologist in the the late 19th century; however, the first successful treatment with department of hematology at the VU a mAb was not until 1982, in a lymphoma patient. In multiple University Medical Center in Amsterdam, The Netherlands. Dr Richardson is the R.J. myeloma, mAbs are a very recent and exciting addition to the Corman Professor of Medicine at Harvard therapeutic armamentarium. The incorporation of mAbs into Medical School, and clinical program current treatment strategies is hoped to enable more effective and leader and director of clinical research targeted treatment, resulting in improved outcomes for patients. at the Jerome Lipper Myeloma Center, A number of targets have been identified, including molecules division of hematologic malignancy, depart- on the surface of the myeloma cell and components of the bone ment of medical oncology, Dana-Farber Cancer Institute in Boston, MA. Dr Plesner marrow microenvironment. Our review focuses on a small number is a professor of hematology at the Univer- of promising mAbs directed against molecules on the surface of sity of Southern Denmark and a consultant myeloma cells, including CS1 (elotuzumab), CD38 (daratumumab, in the department of hematology at Vejle SAR650984, MOR03087), CD56 (lorvotuzumab mertansine), and Hospital in Vejle, Denmark. -
A Molecular Signature of Dormancy in CD34+CD38- Acute Myeloid Leukaemia Cells
www.impactjournals.com/oncotarget/ Oncotarget, 2017, Vol. 8, (No. 67), pp: 111405-111418 Research Paper A molecular signature of dormancy in CD34+CD38- acute myeloid leukaemia cells Mazin Gh. Al-Asadi1,2, Grace Brindle1, Marcos Castellanos3, Sean T. May3, Ken I. Mills4, Nigel H. Russell1,5, Claire H. Seedhouse1 and Monica Pallis5 1University of Nottingham, School of Medicine, Academic Haematology, Nottingham, UK 2University of Basrah, College of Medicine, Basrah, Iraq 3University of Nottingham, School of Biosciences, Nottingham, UK 4Centre for Cancer Research and Cell Biology, Queen’s University Belfast, Belfast, UK 5Clinical Haematology, Nottingham University Hospitals, Nottingham, UK Correspondence to: Claire H. Seedhouse, email: [email protected] Keywords: AML; dormancy; gene expression profiling Received: September 19, 2017 Accepted: November 14, 2017 Published: November 30, 2017 Copyright: Al-Asadi et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC BY 3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. ABSTRACT Dormant leukaemia initiating cells in the bone marrow niche are a crucial therapeutic target for total eradication of acute myeloid leukaemia. To study this cellular subset we created and validated an in vitro model employing the cell line TF- 1a, treated with Transforming Growth Factor β1 (TGFβ1) and a mammalian target of rapamycin inhibitor. The treated cells showed decreases in total RNA, Ki-67 and CD71, increased aldehyde dehydrogenase activity, forkhead box 03A (FOX03A) nuclear translocation and growth inhibition, with no evidence of apoptosis or differentiation. Using human genome gene expression profiling we identified a signature enriched for genes involved in adhesion, stemness/inhibition of differentiation and tumour suppression as well as canonical cell cycle regulation. -
MS4A7 (NM 206939) Human Recombinant Protein Product Data
OriGene Technologies, Inc. 9620 Medical Center Drive, Ste 200 Rockville, MD 20850, US Phone: +1-888-267-4436 [email protected] EU: [email protected] CN: [email protected] Product datasheet for TP312066 MS4A7 (NM_206939) Human Recombinant Protein Product data: Product Type: Recombinant Proteins Description: Recombinant protein of human membrane-spanning 4-domains, subfamily A, member 7 (MS4A7), transcript variant 3 Species: Human Expression Host: HEK293T Tag: C-Myc/DDK Predicted MW: 26 kDa Concentration: >50 ug/mL as determined by microplate BCA method Purity: > 80% as determined by SDS-PAGE and Coomassie blue staining Buffer: 25 mM Tris.HCl, pH 7.3, 100 mM glycine, 10% glycerol Preparation: Recombinant protein was captured through anti-DDK affinity column followed by conventional chromatography steps. Storage: Store at -80°C. Stability: Stable for 12 months from the date of receipt of the product under proper storage and handling conditions. Avoid repeated freeze-thaw cycles. RefSeq: NP_996822 Locus ID: 58475 UniProt ID: Q9GZW8, A0A024R556 RefSeq Size: 2976 Cytogenetics: 11q12.2 RefSeq ORF: 720 Synonyms: 4SPAN2; CD20L4; CFFM4; MS4A8 This product is to be used for laboratory only. Not for diagnostic or therapeutic use. View online » ©2021 OriGene Technologies, Inc., 9620 Medical Center Drive, Ste 200, Rockville, MD 20850, US 1 / 2 MS4A7 (NM_206939) Human Recombinant Protein – TP312066 Summary: This gene encodes a member of the membrane-spanning 4A gene family, members of which are characterized by common structural features and similar intron/exon splice boundaries and display unique expression patterns in hematopoietic cells and nonlymphoid tissues. This family member is associated with mature cellular function in the monocytic lineage, and it may be a component of a receptor complex involved in signal transduction.