2604.Full-Text.Pdf

Total Page:16

File Type:pdf, Size:1020Kb

2604.Full-Text.Pdf Published OnlineFirst February 26, 2019; DOI: 10.1158/0008-5472.CAN-18-3842 Cancer Molecular Cell Biology Research Retinoic Acid–Related Orphan Receptor C Regulates Proliferation, Glycolysis, and Chemoresistance via the PD-L1/ITGB6/STAT3 Signaling Axis in Bladder Cancer Dalong Cao1,2,3, Zihao Qi4, Yangyang Pang5, Haoran Li2,3,6, Huyang Xie7, Junlong Wu1,3, Yongqiang Huang1,3, Yao Zhu1,3, Yijun Shen1,3, Yiping Zhu1,3, Bo Dai1,3, Xin Hu2, Dingwei Ye1,2,3, and Ziliang Wang2,8 Abstract Retinoic acid–related orphan receptor C (RORC) is a of the PD-L1/ITGB6 signaling pathway, which further inhib- member of the nuclear orphan receptor family and performs ited bladder cell proliferation and glucose metabolism and critical regulatory functions in cell proliferation, metastasis, increased cisplatin-induced apoptosis. These findings reveal and chemoresistance in various types of malignant tumors. that RORC regulates bladder cancer cell proliferation, glu- Here we showed that expression of RORC is lost in tumor cose metabolism, and chemoresistance by participating in tissues of bladder cancer patients. Enhanced expression of the PD-L1/ITGB6/STAT3 signaling axis. Moreover, this new RORC suppressed cell proliferation and glucose metabolism understanding of PD-L1 signaling may guide the selection of and increased cisplatin-induced apoptosis in vitro and in vivo. therapeutic targets to prevent tumor recurrence. RORC bound the promoter region of programmed death ligand-1 (PD-L1) and negatively regulated PD-L1 expression. Significance: These findings suggest that RORC-mediated PD-L1 directly interacted with integrin b6 (ITGB6) and regulation of a PD-L1/ITGB6/FAK/STAT3 signaling axis in activated the ITGB6/FAK signaling pathway. RORC pre- bladder cancer provides several potential therapeutic targets vented the nuclear translocation of STAT3 via suppression to prevent tumor progression. Introduction cancers and accounted for nearly 80.5 per 100,000 new cases and 32.9 per 100,000 deaths in 2015 (1, 2). Approximately Bladder cancer is one of the most common malignancies 70% of bladder cancer cases are non–muscle-invasive bladder worldwide and is also the most common cancer of the geni- cancer, treated by transurethral resection of bladder tumor and tourinary system in China, which ranked the eighth among all followedbyintravesicaltreatment.However,uptotwothirds of patients will relapse or progress to muscle-invasive bladder 1Department of Urology, Fudan University Shanghai Cancer Center, Shanghai, cancer (MIBC; ref. 3). For MIBC, radical cystectomy is often China. 2Cancer Institute, Fudan University Shanghai Cancer Center, Shanghai, performed, followed by chemotherapy and radiotherapy, but China. 3Department of Oncology, Shanghai Medical College, Fudan University, only 50% of patients will survive for 5 years (3, 4). Thus, there 4 Shanghai, China. Huadong Hospital Affiliated to Fudan University, Shanghai, is still a need for finding new methods for the treatment of 5 fi China. Department of Urology, Jiading District Central Hospital Af liated bladder cancer. Shanghai University of Medicine and Health Sciences, Shanghai, China. 6Depart- ment of Gynecologic Oncology, Fudan University Shanghai Cancer Center, Nuclear receptors (NR) are a class of ligand-based transcription Shanghai, China. 7Department of Urology, Affiliated Hospital of Nantong Uni- factors that are widely distributed in organisms. There are various versity, Nantong, China. 8Department of Obstetrics and Gynecology, Xinhua members of NRs, which constitute a large family and can be Hospital Affiliated to Shanghai Jiaotong University School Medicine, Shanghai, divided into three categories: steroid hormone receptors, nonste- China. roid hormone receptors, and nuclear orphan receptors. NRs, Note: Supplementary data for this article are available at Cancer Research served as molecular switches, play key roles in diverse cellular Online (http://cancerres.aacrjournals.org/). processes, including cell proliferation, differentiation, and D.L. Cao, Z.H. Qi, Y.Y. Pang, and H.R. Li contributed equally to this article. homeostasis (5). NRs are involved in a multitude of pathologic Corresponding Authors: Ziliang Wang, Xinhua Hospital Affiliated to Shanghai processes, including carcinogenesis, and hence are supposed as Jiaotong University School Medicine, 1665 Kongjiang Road, Shanghai 200092, novel therapeutic targets (6, 7). Nuclear orphan receptors referred China. Phone: 86-21-34777310; E-mail: [email protected] or to those molecules that sequence similar to known receptors [email protected]; and Dingwei Ye, Department of Urology, Fudan Univer- without an identified natural ligand. sity Shanghai Cancer Center, Department of Oncology, Shanghai Medical Receptor retinoic acid–related orphan receptor C (RORC, also College, Fudan University, 270 Dong'an Road, Shanghai 200032, China. E-mail: named RORg) is one of the family members of the nuclear orphan [email protected] receptors and functions as a DNA-binding transcription factor (8). doi: 10.1158/0008-5472.CAN-18-3842 Recently, the regulatory role of RORC in tumorigenesis has been Ó2019 American Association for Cancer Research. established. In breast cancer, RORC expression is decreased in 2604 Cancer Res; 79(10) May 15, 2019 Downloaded from cancerres.aacrjournals.org on September 28, 2021. © 2019 American Association for Cancer Research. Published OnlineFirst February 26, 2019; DOI: 10.1158/0008-5472.CAN-18-3842 The RORC/PD-L1/ITGB6/STAT3 Signaling Axis in Bladder Cancer aggressive basal-like breast cancer and negatively associated with streptomycin (Biowest) and incubated at 37C in a humidified histologic grade in several human cohorts (9). In melanoma, the incubator with 5% CO2. expression of RORC was lower in melanomas than in nevi and decreased during tumor progression, with lowest levels found in Whole-body 18F-FDG positron emission tomography/ primary melanomas at stages III and IV and in melanoma metas- computed tomography tases (10). RORC-deficient mice are relatively healthy and fertile. Briefly, 18F-FDG was automatically made by a cyclotron However, the expression and function of RORC in human bladder (Siemens CTI RDS Eclipse ST) using an Explora FDG4 module. cancer cells remain largely unexplored. Patients had been fasting for more than 6 hours. Scanning started In this study, we identified that the expression of RORC was 1 hour after intravenous injection of the tracer (7.4 MBq/kg). The downregulated in tumors from bladder cancer patients, with images were acquired on a Siemens biograph 16HR positron significantly lower levels found in bladder cancer patients with emission tomography/computed tomography (PET/CT) scanner advanced tumor stage and resistant to chemotherapy. RORC with a transaxial intrinsic spatial resolution of 4.1 mm. CT scanning functions as a key determinant of programmed death ligand-1 was first initiated from the proximal thighs to the head, with (PD-L1) overexpression and aberrant signaling in bladder cancer 120 kV, 80–250 mA, pitch 3.6, and rotation time of 0.5 seconds. cells. Furthermore, RORC was determined to regulate cell prolif- Image interpretation was carried out on a multimodality computer eration, glucose metabolism, and chemoresistance via suppres- platform (Syngo; Siemens). Quantification of metabolic activity sing the PD-L1/ITGB6/STAT3 signaling axis in bladder cancer. was acquired using the standard uptake value (SUV) normalized Thus, our findings establish RORC as a previously unsuspected to body weight, and the SUVmax for each lesion was calculated. key player and a novel therapeutic target for bladder cancer. Plasmid construction and viral infection Materials and Methods The recombinant plasmid pENTER-RORC containing human full cDNA sequence of RORC was purchased from Vigene Bios- Patients and tissue samples ciences. Then the cDNA sequence of RORC was subcloned into Tissue microarrays were fabricated using formalin-fixed lentivirus vector. Lentivirus was produced by cotransfecting 293T paraffin-embedded tissues of carcinoma (n ¼ 155) and para- cells with pRSV-Rev, pMD2.G, pMDLg/pRRE, and pCDH-puro carcinoma (n ¼ 115) from patients with bladder urothelial cancer, expression vectors. The virus was harvested after 48 hours by who underwent radical cystectomy at the Fudan University filtering the virus-containing medium through 0.45-mm Steriflip Shanghai Cancer Center (FUSCC) from 2008 to 2012. Clinical filter (Millipore). Human bladder cancer cell lines 5637 and UC3 and pathologic characteristics for all participants included in this were infected by incubating cells with medium containing indi- study were collected from the patients' electronic database at cated virus and 1 ng/mL polybrene (Sigma) for 24 hours. Estab- FUSCC and then evaluated (Supplementary Table S1). Briefly, lished stable cell lines expressing RORC were constructed as the median age of the patients was 62 years (range, 33–83 years). A above. By following the same protocol, control cell lines were total of 86 (55.5%) patients were diagnosed with stage I–II while generated using infection with viruses containing the empty 69 (44.5%) patients with stage III–IV, and 11 (7.1%) patients vector. In addition, the human full cDNA sequence of PD-L1 was possessed with low-grade urothelial cancer while 144 (92.9%) purchased from Vigene Biosciences. patients with high-grade urothelial cancer. For chemotherapeutic Promoter sequences of PD-L1 (À3000–0 bp) were cloned from response, 35 (67.3%) patients were resistant to platinum-based genomic DNA prepared from
Recommended publications
  • Behavioural Brain Research 217 (2011) 271–281
    Behavioural Brain Research 217 (2011) 271–281 Contents lists available at ScienceDirect Behavioural Brain Research journal homepage: www.elsevier.com/locate/bbr Research report The telomeric part of the human chromosome 21 from Cstb to Prmt2 is not necessary for the locomotor and short-term memory deficits observed in the Tc1 mouse model of Down syndrome Arnaud Duchon a, Stéphanie Pothion b, Véronique Brault a, Andrew J. Sharp c, Victor L.J. Tybulewicz d, Elizabeth M.C. Fisher e, Yann Herault a,b,f,∗ a Institut de Génétique Biologie Moléculaire et Cellulaire, Translational Medicine and Neuroscience Program, IGBMC, CNRS, INSERM, Université de Strasbourg, UMR7104, UMR964, 1 rue Laurent Fries, 67404 Illkirch, France b Transgenese et Archivage Animaux Modèles, TAAM, CNRS, UPS44, 3B rue de la Férollerie 45071 Orléans, France c Department of Genetics and Genomic Sciences, Mount Sinai School of Medicine, 1425 Madison Avenue, Room 14-75B, Box 1498, New York, NY 10029, USA d MRC National Institute for Medical Research, Mill Hill, London NW7 1AA, UK e UCL Institute of Neurology, Queen Square, London WC1N 3BG, UK f Institut Clinique de la Souris, ICS, 1 rue Laurent Fries, 67404 Illkirch, France article info abstract Article history: Trisomy 21 or Down syndrome (DS) is the most common form of human aneuploid disorder. Increase Received 5 September 2010 in the copy number of human chromosome 21 genes leads to several alterations including mental retar- Received in revised form 6 October 2010 dation, heart and skeletal dysmorphologies with additional physiological defects. To better understand Accepted 17 October 2010 the genotype and phenotype relationships, several mouse models have been developed, including the Available online 31 October 2010 transchromosomic Tc1 mouse, which carries an almost complete human chromosome 21, that displays several locomotor and cognitive alterations related to DS.
    [Show full text]
  • An Animal Model with a Cardiomyocyte-Specific Deletion of Estrogen Receptor Alpha: Functional, Metabolic, and Differential Netwo
    Washington University School of Medicine Digital Commons@Becker Open Access Publications 2014 An animal model with a cardiomyocyte-specific deletion of estrogen receptor alpha: Functional, metabolic, and differential network analysis Sriram Devanathan Washington University School of Medicine in St. Louis Timothy Whitehead Washington University School of Medicine in St. Louis George G. Schweitzer Washington University School of Medicine in St. Louis Nicole Fettig Washington University School of Medicine in St. Louis Attila Kovacs Washington University School of Medicine in St. Louis See next page for additional authors Follow this and additional works at: https://digitalcommons.wustl.edu/open_access_pubs Recommended Citation Devanathan, Sriram; Whitehead, Timothy; Schweitzer, George G.; Fettig, Nicole; Kovacs, Attila; Korach, Kenneth S.; Finck, Brian N.; and Shoghi, Kooresh I., ,"An animal model with a cardiomyocyte-specific deletion of estrogen receptor alpha: Functional, metabolic, and differential network analysis." PLoS One.9,7. e101900. (2014). https://digitalcommons.wustl.edu/open_access_pubs/3326 This Open Access Publication is brought to you for free and open access by Digital Commons@Becker. It has been accepted for inclusion in Open Access Publications by an authorized administrator of Digital Commons@Becker. For more information, please contact [email protected]. Authors Sriram Devanathan, Timothy Whitehead, George G. Schweitzer, Nicole Fettig, Attila Kovacs, Kenneth S. Korach, Brian N. Finck, and Kooresh I. Shoghi This open access publication is available at Digital Commons@Becker: https://digitalcommons.wustl.edu/open_access_pubs/3326 An Animal Model with a Cardiomyocyte-Specific Deletion of Estrogen Receptor Alpha: Functional, Metabolic, and Differential Network Analysis Sriram Devanathan1, Timothy Whitehead1, George G. Schweitzer2, Nicole Fettig1, Attila Kovacs3, Kenneth S.
    [Show full text]
  • 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,
    [Show full text]
  • The Role of Arginine Methylation of Hnrnpul1 in the DNA Damage Response Pathway Gayathri Gurunathan
    The role of arginine methylation of hnRNPUL1 in the DNA damage response pathway Gayathri Gurunathan Faculty of Medicine Division of Experimental Medicine McGill University, Montreal, Quebec, Canada August 2014 A Thesis Submitted to McGill University in Partial Fulfillment of the Requirements for the Degree of Master of Science © Gayathri Gurunathan 2014 Abstract Post-translational modifications play a key role in mediating the DNA damage response (DDR). It is well-known that serine/threonine phosphorylation is a major post-translational modification required for the amplification of the DDR; however, less is known about the role of other modifications, such as arginine methylation. It is known that arginine methylation of the DDR protein, MRE11, by protein arginine methyltransferase 1 (PRMT1) is essential for the response, as the absence of methylation of MRE11 in mice leads to hypersensitivity to DNA damage agents. Herein, we identify hnRNPUL1 as a substrate of PRMT1 and the methylation of hnRNPUL1 is required for DNA damage signalling. I show that several RGG/RG sequences of hnRNPUL1 are methylated in vitro by PRMT1. Recombinant glutathione S-transferase (GST) proteins harboring hnRNPUL1 RGRGRG, RGGRGG and a single RGG were efficient in vitro substrates of PRMT1. Moreover, I performed mass spectrometry analysis of Flag-hnRNPUL1 and identified the same sites methylated in vivo. PRMT1-depletion using RNA interference led to the hypomethylation of hnRNPUL1, consistent with PRMT1 being the only enzyme in vivo to methylate these sequences. We replaced the arginines with lysine in hnRNPUL1 (Flag- hnRNPUL1RK) such that this mutant protein cannot be methylated by PRMT1. Indeed Flag- hnRNPUL1RK was undetected using specific dimethylarginine antibodies.
    [Show full text]
  • Epigenetic Arginine Methylation in Breast Cancer: Emerging Therapeutic Strategies
    62 3 Journal of Molecular S-C M Wang et al. Epigenetic PRMT signalling in 62:3 R223–R237 Endocrinology breast cancer REVIEW Epigenetic arginine methylation in breast cancer: emerging therapeutic strategies Shu-Ching M Wang, Dennis H Dowhan and George E O Muscat Cell Biology and Molecular Medicine Division, The University of Queensland, Institute for Molecular Bioscience, St Lucia, Australia Correspondence should be addressed to S-C M Wang or G E O Muscat: [email protected] or [email protected] Abstract Breast cancer is a heterogeneous disease, and the complexity of breast carcinogenesis Key Words is associated with epigenetic modification. There are several major classes of epigenetic f breast cancer enzymes that regulate chromatin activity. This review will focus on the nine mammalian f epigenetic signalling protein arginine methyltransferases (PRMTs) and the dysregulation of PRMT expression f protein arginine and function in breast cancer. This class of enzymes catalyse the mono- and (symmetric methyltransferases and asymmetric) di-methylation of arginine residues on histone and non-histone target f arginine methylation proteins. PRMT signalling (and R methylation) drives cellular proliferation, cell invasion and metastasis, targeting (i) nuclear hormone receptor signalling, (ii) tumour suppressors, (iii) TGF-β and EMT signalling and (iv) alternative splicing and DNA/chromatin stability, influencing the clinical and survival outcomes in breast cancer. Emerging reports suggest that PRMTs are also implicated in the development of drug/endocrine resistance providing another prospective avenue for the treatment of hormone resistance and associated metastasis. The complexity of PRMT signalling is further underscored by the degree of alternative splicing and the scope of variant isoforms (with distinct properties) within each PRMT family member.
    [Show full text]
  • The Two Tort Dit U Nonton Un Mountin
    THETWO TORT DIT USU 20180010132A1NONTONUN MOUNTIN ( 19) United States (12 ) Patent Application Publication ( 10) Pub . No. : US 2018 / 0010132 A1 MAVRAKIS et al. ( 43 ) Pub . Date : Jan . 11 , 2018 ( 54 ) INHIBITION OF PRMT5 TO TREAT Publication Classification MTAP - DEFICIENCY- RELATED DISEASES (51 ) Int . CI. C12N 15 / 113 ( 2010 .01 ) (71 ) Applicant : NOVARTIS AG , Basel (CH ) A61K 45 / 06 ( 2006 . 01) ( 72 ) Inventors : Konstantinos John MAVRAKIS , A61K 31 / 7088 (2006 . 01 ) Boston , MA (US ) ; Earl Robert COZK 16 / 40 ( 2006 .01 ) MCDONALD , III , Wayland , MA (US ) ; A61K 39 /395 ( 2006 . 01 ) Frank Peter STEGMEIER , Acton , GOIN 33 /574 (2006 . 01 ) A61K 39 / 00 ( 2006 .01 ) MA (US ) (52 ) U . S . CI. CPC . .. C12N 15 / 1137 ( 2013 .01 ) ; A61K 39 /3955 ( 73 ) Assignee : Novartis AG , Basel (CH ) ( 2013 .01 ) ; A61K 45 / 06 ( 2013 .01 ) ; GOIN 33 /574 ( 2013. 01 ) ; C12Y 201/ 01 (2013 .01 ) ; ( 21 ) Appl. No. : 15 /510 , 542 A61K 31 /7088 (2013 .01 ) ; CO7K 16 / 40 ( 2013 .01 ) ; A61K 2039 /505 (2013 . 01 ) ; C12N ( 22 ) PCT Filed : Sep . 9 , 2015 2310 / 14 (2013 . 01 ) ; C12N 2320 / 31 ( 2013 .01 ) ; ( 86 ) PCT No .: PCT/ IB2015 /056902 CO7K 2317/ 76 ( 2013 .01 ) $ 371 (c ) ( 1 ) , (57 ) ABSTRACT ( 2 ) Date : Mar. 10 , 2017 The invention provides novel personalized therapies , kits , transmittable forms of information and methods for use in treating patients having cancer , wherein the cancer is Related U . S . Application Data MTAP - deficient and / or MTA -accumulating and thus ame (60 ) Provisional application No . 62/ 131 ,437 , filed on Mar . nable to therapeutic treatment with a PRMT5 inhibitor. Kits , 11 , 2015 , provisional application No .
    [Show full text]
  • The Protein Arginine Methyltransferase PRMT5 Regulates Proliferation
    The Protein Arginine Methyltransferase PRMT5 Regulates Proliferation and the Expression of MITF and p27Kip1 in Human Melanoma DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University by Courtney Nicholas Graduate Program in Molecular, Cellular, and Developmental Biology The Ohio State University 2012 Dissertation Committee: Gregory B. Lesinski, PhD, Advisor Jiayuh Lin, PhD Amanda E. Toland, PhD Susheela Tridandapani, PhD Copyright by Courtney Nicholas 2012 Abstract The protein arginine methyltransferase-5 (PRMT5) enzyme is a Type II arginine methyltransferase that can regulate a variety of cellular functions. We hypothesized that PRMT5 plays a unique role in regulating the growth of human melanoma cells. Immunohistochemical analysis indicated significant upregulation of PRMT5 in human melanocytic nevi (88% of specimens positive for PRMT5), malignant melanomas (90% positive) and metastatic melanomas (88% positive) as compared to normal epidermis (5% of specimens positive for PRMT5; p<0.001, Fisher’s exact test). Furthermore, nuclear PRMT5 was significantly decreased in metastatic melanomas as compared to primary cutaneous melanomas (p<0.001, Wilcoxon rank sum test). Human metastatic melanoma cell lines in culture expressed PRMT5 predominantly in the cytoplasm. PRMT5 was found to be associated with its enzymatic cofactor Mep50, but not associated with STAT3 or cyclin D1. However, histologic examination of tumor xenografts from athymic mice revealed a heterogeneous pattern of nuclear and cytoplasmic PRMT5 expression. siRNA-mediated depletion of PRMT5 inhibited proliferation in a subset of melanoma cell lines, while it accelerated the growth of others. Loss of PRMT5 also led to reduced expression of MITF (microphthalmia-associated transcription factor), a melanocyte-lineage specific oncogene, and increased expression of the cell cycle regulator p27Kip1.
    [Show full text]
  • Chromosome 21 Leading Edge Gene Set
    Chromosome 21 Leading Edge Gene Set Genes from chr21q22 that are part of the GSEA leading edge set identifying differences between trisomic and euploid samples. Multiple probe set IDs corresponding to a single gene symbol are combined as part of the GSEA analysis. Gene Symbol Probe Set IDs Gene Title 203865_s_at, 207999_s_at, 209979_at, adenosine deaminase, RNA-specific, B1 ADARB1 234539_at, 234799_at (RED1 homolog rat) UDP-Gal:betaGlcNAc beta 1,3- B3GALT5 206947_at galactosyltransferase, polypeptide 5 BACE2 217867_x_at, 222446_s_at beta-site APP-cleaving enzyme 2 1553227_s_at, 214820_at, 219280_at, 225446_at, 231860_at, 231960_at, bromodomain and WD repeat domain BRWD1 244622_at containing 1 C21orf121 240809_at chromosome 21 open reading frame 121 C21orf130 240068_at chromosome 21 open reading frame 130 C21orf22 1560881_a_at chromosome 21 open reading frame 22 C21orf29 1552570_at, 1555048_at_at, 1555049_at chromosome 21 open reading frame 29 C21orf33 202217_at, 210667_s_at chromosome 21 open reading frame 33 C21orf45 219004_s_at, 228597_at, 229671_s_at chromosome 21 open reading frame 45 C21orf51 1554430_at, 1554432_x_at, 228239_at chromosome 21 open reading frame 51 C21orf56 223360_at chromosome 21 open reading frame 56 C21orf59 218123_at, 244369_at chromosome 21 open reading frame 59 C21orf66 1555125_at, 218515_at, 221158_at chromosome 21 open reading frame 66 C21orf7 221211_s_at chromosome 21 open reading frame 7 C21orf77 220826_at chromosome 21 open reading frame 77 C21orf84 239968_at, 240589_at chromosome 21 open reading frame 84
    [Show full text]
  • S41598-021-85062-3.Pdf
    www.nature.com/scientificreports OPEN Genetic dissection of down syndrome‑associated alterations in APP/amyloid‑β biology using mouse models Justin L. Tosh1,2, Elena R. Rhymes1, Paige Mumford3, Heather T. Whittaker1, Laura J. Pulford1, Sue J. Noy1, Karen Cleverley1, LonDownS Consortium*, Matthew C. Walker4, Victor L. J. Tybulewicz2,5, Rob C. Wykes4,6, Elizabeth M. C. Fisher1* & Frances K. Wiseman3* Individuals who have Down syndrome (caused by trisomy of chromosome 21), have a greatly elevated risk of early‑onset Alzheimer’s disease, in which amyloid‑β accumulates in the brain. Amyloid‑β is a product of the chromosome 21 gene APP (amyloid precursor protein) and the extra copy or ‘dose’ of APP is thought to be the cause of this early‑onset Alzheimer’s disease. However, other chromosome 21 genes likely modulate disease when in three‑copies in people with Down syndrome. Here we show that an extra copy of chromosome 21 genes, other than APP, infuences APP/Aβ biology. We crossed Down syndrome mouse models with partial trisomies, to an APP transgenic model and found that extra copies of subgroups of chromosome 21 gene(s) modulate amyloid‑β aggregation and APP transgene‑associated mortality, independently of changing amyloid precursor protein abundance. Thus, genes on chromosome 21, other than APP, likely modulate Alzheimer’s disease in people who have Down syndrome. Down syndrome (DS), which occurs in approximately 1 in 1000 births, is the most common cause of early-onset Alzheimer’s disease-dementia (AD-DS)1. Approximately 6 million people have DS world-wide and by the age of 65 two-thirds of these individuals will have a clinical dementia diagnosis.
    [Show full text]
  • Weighted Cox Regression for the Prediction of Heterogeneous Patient
    WEIGHTED COX REGRESSION FOR THE PREDICTION OF HETEROGENEOUS PATIENT SUBGROUPS Katrin Madjar Jörg Rahnenführer Department of Statistics Department of Statistics TU Dortmund University TU Dortmund University 44221 Dortmund, Germany 44221 Dortmund, Germany [email protected] [email protected] March 23, 2020 ABSTRACT An important task in clinical medicine is the construction of risk prediction models for specific subgroups of patients based on high-dimensional molecular measurements such as gene expression data. Major objectives in modeling high-dimensional data are good prediction performance and feature selection to find a subset of predictors that are truly associated with a clinical outcome such as a time-to-event endpoint. In clinical practice, this task is challenging since patient cohorts are typically small and can be heterogeneous with regard to their relationship between predictors and outcome. When data of several subgroups of patients with the same or similar disease are available, it is tempting to combine them to increase sample size, such as in multicenter studies. However, heterogeneity between subgroups can lead to biased results and subgroup-specific effects may remain undetected. For this situation, we propose a penalized Cox regression model with a weighted version of the Cox partial likelihood that includes patients of all subgroups but assigns them individual weights based on their subgroup affiliation. Patients who are likely to belong to the subgroup of interest obtain higher weights in the subgroup-specific model. Our proposed approach is evaluated through simulations and application to real lung cancer cohorts. Simulation results demonstrate that our model can achieve improved prediction and variable selection accuracy over standard approaches.
    [Show full text]
  • Genetic Co-Expression Networks Contribute to Creating Predictive
    www.nature.com/scientificreports OPEN Genetic co‑expression networks contribute to creating predictive model and exploring novel biomarkers for the prognosis of breast cancer Yuan‑Kuei Li1,2,23, Huan‑Ming Hsu3,4,5,23, Meng‑Chiung Lin6,23, Chi‑Wen Chang7,8,9,23, Chi‑Ming Chu10,11,12,13,14,23, Yu‑Jia Chang15,16,23, Jyh‑Cherng Yu3, Chien‑Ting Chen10, Chen‑En Jian10, Chien‑An Sun11, Kang‑Hua Chen7,9, Ming‑Hao Kuo17, Chia‑Shiang Cheng18, Ya‑Ting Chang10, Yi‑Syuan Wu18, Hao‑Yi Wu10, Ya‑Ting Yang10, Chen Lin2,19, Hung‑Che Lin5,17,20, Je‑Ming Hu5,17,21,22 & Yu‑Tien Chang10,11* Genetic co‑expression network (GCN) analysis augments the understanding of breast cancer (BC). We aimed to propose GCN‑based modeling for BC relapse‑free survival (RFS) prediction and to discover novel biomarkers. We used GCN and Cox proportional hazard regression to create various prediction models using mRNA microarray of 920 tumors and conduct external validation using independent data of 1056 tumors. GCNs of 34 identifed candidate genes were plotted in various sizes. Compared to the reference model, the genetic predictors selected from bigger GCNs composed better prediction models. The prediction accuracy and AUC of 3 ~ 15‑year RFS are 71.0–81.4% and 74.6–78% respectively (rfm, ACC 63.2–65.5%, AUC 61.9–74.9%). The hazard ratios of risk scores of developing relapse ranged from 1.89 ~ 3.32 (p < ­10–8) over all models under the control of the node status. External validation showed the consistent fnding.
    [Show full text]
  • Protein Arginine Methylation in Estrogen Signaling and Estrogen-Related Cancers
    Protein arginine methylation in estrogen signaling and estrogen-related cancers. Catherine Teyssier, Muriel Le Romancer, Stéphanie Sentis, Stéphan Jalaguier, Laura Corbo, Vincent Cavaillès To cite this version: Catherine Teyssier, Muriel Le Romancer, Stéphanie Sentis, Stéphan Jalaguier, Laura Corbo, et al.. Protein arginine methylation in estrogen signaling and estrogen-related cancers.. Trends in Endocrinol- ogy and Metabolism = Trends in Endocrinology & Metabolism , Elsevier, 2010, 21 (3), pp.181-9. 10.1016/j.tem.2009.11.002. inserm-00452350 HAL Id: inserm-00452350 https://www.hal.inserm.fr/inserm-00452350 Submitted on 2 Feb 2010 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. 1 REVIEW ARTICLE 2 3 4 5 6 Protein arginine methylation in estrogen signaling and estrogen-related cancers 7 8 9 10 11 Catherine Teyssier 1, Muriel Le Romancer 2, Stéphanie Sentis2, Stéphan Jalaguier 3, Laura 12 Corbo 2 and Vincent Cavaillès 3 13 14 15 16 1INSERM, U554, Montpellier, F-34090, France ; CNRS, UMR5048, Centre de Biochimie 17 Structurale, Universités Montpellier
    [Show full text]