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Table S2 Differentially Expressed Genes Between Oncogene-Introduced Wild-Type and Atf4-/- Cells

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Table S2 Differentially expressed genes between oncogene-introduced wild-type and Atf4-/- cells GeneSymbol Gene Name Zscore ratio Genbank Accession Cfd complement factor D 12.714 25036.184 NM_013459 Saa3 serum amyloid A 3 11.189 7437.106 NM_011315 Hp haptoglobin 10.836 5613.776 NM_017370 Prl2c5 prolactin family 2, subfamily c, member 5 7.688 92.732 NM_181852 Cidec cell death-inducing DFFA-like effector c 7.611 982.214 NM_178373 Nrap nebulin-related anchoring protein 7.569 945.372 NM_008733 Adipoq adiponectin, C1Q and collagen domain containing 7.563 940.547 NM_009605 C3 complement component 3 7.310 339.287 NM_009778 Trim12a tripartite motif-containing 12A 7.214 685.215 NM_023835 Apoc1 apolipoprotein C-I 7.026 270.661 NM_007469 Saa1 serum amyloid A 1 6.880 77.790 NM_009117 Lcn2 lipocalin 2 6.658 201.906 NM_008491 Ddx3y DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, Y-linked 6.620 400.047 NM_012008 Pxt1 peroxisomal, testis specific 1 6.470 349.122 NM_153390 Dll4 delta-like 4 6.455 344.263 NM_019454 Lrg1 leucine-rich alpha-2-glycoprotein 1 6.398 326.917 NM_029796 Dcn decorin 6.335 41.800 NM_007833 Rarres2 retinoic acid receptor responder (tazarotene induced) 2 5.985 118.167 NM_027852 Ccl2 chemokine (C-C motif) ligand 2 5.980 12.764 NM_011333 Cyp2f2 cytochrome P450, family 2, subfamily f, polypeptide 2 5.944 584.071 NM_007817 Ccl11 chemokine (C-C motif) ligand 11 5.936 579.003 NM_011330 Plin1 perilipin 1 5.846 198.287 NM_175640 Gsta3 glutathione S-transferase, alpha 3 5.842 105.447 NM_001077353 Barx2 BarH-like homeobox 2 5.836 40.178 NM_013800 Gpd1 glycerol-3-phosphate dehydrogenase 1 5.761 98.835 NM_010271 Fabp4 fatty acid binding protein 4, adipocyte 5.667 28.197 NM_024406 Ifi27l2a interferon, alpha-inducible protein 27 like 2A 5.665 91.632 NM_029803 Eif2s3y eukaryotic translation initiation factor 2, subunit 3, structural gene Y-linked 5.562 153.234 NM_012011 Mnda myeloid cell nuclear differentiation antigen 5.513 368.786 NM_001033450 Prl2c1 Prolactin family 2, subfamily c, member 1 5.478 25.230 NM_001045532 Plin4 perilipin 4 5.412 30.703 NM_020568 Trf transferrin 5.145 60.553 NM_133977 Klra2 killer cell lectin-like receptor, subfamily A, member 2 5.046 223.985 NM_001170851 Cfb complement factor B 5.043 95.684 NM_008198 Dpt dermatopontin 5.001 92.155 NM_019759 Brs3 bombesin-like receptor 3 4.985 209.917 NM_009766 Fth1 ferritin heavy chain 1 4.961 3.041 NM_010239 C1s complement component 1, s subcomponent 4.890 49.443 NM_144938 Angptl4 angiopoietin-like 4 4.853 21.563 NM_020581 Pdpn podoplanin 4.852 17.453 NM_010329 Tmem14c transmembrane protein 14C 4.782 45.344 NM_025387 Cp ceruloplasmin 4.759 44.548 NM_007752 Il4ra interleukin 4 receptor, alpha 4.750 73.367 NM_001008700 Cck cholecystokinin 4.734 7.486 NM_031161 Tmem176b transmembrane protein 176B 4.725 7.458 NM_023056 Vstm2a V-set and transmembrane domain containing 2A 4.687 152.663 NM_145967 Ccl7 chemokine (C-C motif) ligand 7 4.614 7.112 NM_013654 Snhg11 small nucleolar RNA host gene 11 4.531 129.291 NM_175692 Tekt5 tektin 5 4.531 129.200 NM_001099275 Gstm6 glutathione S-transferase, mu 6 4.438 55.291 NM_008184 Lgals3bp lectin, galactoside-binding, soluble, 3 binding protein 4.437 13.666 NM_011150 Mefv Mediterranean fever 4.433 55.046 NM_019453 Cxcl1 chemokine (C-X-C motif) ligand 1 4.425 16.435 NM_008176 Thrsp thyroid hormone responsive SPOT14 homolog 4.414 114.129 NM_009381 Islr immunoglobulin superfamily containing leucine-rich repeat 4.396 33.351 NM_012043 Gfra2 glial cell line derived neurotrophic factor family receptor alpha 2 4.351 32.181 NM_008115 Pck1 phosphoenolpyruvate carboxykinase 1, cytosolic 4.348 106.318 NM_011044 Penk preproenkephalin 4.339 15.570 NM_001002927 Ces2e carboxylesterase 2E 4.324 31.510 NM_172759 Acyp2 acylphosphatase 2, muscle type 4.321 49.721 NM_029344 Ifi27l1 interferon, alpha-inducible protein 27 like 1 4.310 12.680 NM_026790 Grin3b glutamate receptor, ionotropic, NMDA3B 4.304 48.978 NM_130455 Samd4 sterile alpha motif domain containing 4 4.251 29.733 NM_001037221 Gdf10 growth differentiation factor 10 4.246 46.446 NM_145741 Caskin2 CASK-interacting protein 2 4.220 14.441 NM_080643 Ugt1a6b UDP glucuronosyltransferase 1 family, polypeptide A6B 4.183 14.104 NM_201410 Ly6g lymphocyte antigen 6 complex, locus G 4.180 28.082 XM_001475753 Tmem45b transmembrane protein 45b 4.178 88.645 NM_144936 Atp1a2 ATPase, Na+/K+ transporting, alpha 2 polypeptide 4.145 85.624 NM_178405 Grem1 gremlin 1 4.099 11.198 NM_011824 Ccl8 chemokine (C-C motif) ligand 8 4.088 26.107 NM_021443 Cdkn2a cyclin-dependent kinase inhibitor 2A 4.074 11.038 NM_009877 H2-Ab1 histocompatibility 2, class II antigen A, beta 1 4.068 25.690 NM_207105 Mfsd6l major facilitator superfamily domain containing 6-like 4.065 78.602 NM_146004 Fmo2 flavin containing monooxygenase 2 4.041 76.607 NM_018881 Ctsk cathepsin K 4.033 12.829 NM_007802 Mrap melanocortin 2 receptor accessory protein 3.990 36.831 NM_029844 Mmp10 matrix metallopeptidase 10 3.989 24.129 NM_019471 Cidea cell death-inducing DNA fragmentation factor, alpha subunit-like effector A 3.976 36.362 NM_007702 Sepp1 selenoprotein P, plasma, 1 3.976 12.368 NM_001042614 Cox8b cytochrome c oxidase, subunit VIIIb 3.968 70.884 NM_007751 Camp cathelicidin antimicrobial peptide 3.962 35.923 NM_009921 Hsd3b6 hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid 3.953 69.740 NM_013821 delta-isomerase 6 Aoc3 amine oxidase, copper containing 3 3.950 35.512 NM_009675 Fgf23 fibroblast growth factor 23 3.944 5.338 NM_022657 Retn resistin 3.942 68.952 NM_001204959 Nlrc5 NLR family, CARD domain containing 5 3.929 34.840 NM_001033207 Wdr92 WD repeat domain 92 3.924 11.971 NM_178909 Cpz carboxypeptidase Z 3.900 22.470 NM_153107 Lce1g late cornified envelope 1G 3.897 9.945 NM_025413 Clstn2 calsyntenin 2 3.878 22.092 NM_022319 Idua iduronidase, alpha-L- 3.858 5.147 NM_008325 Tusc5 tumor suppressor candidate 5 3.830 61.160 NM_177709 Uts2d urotensin 2 domain containing 3.821 60.551 NM_198166 Dbp D site albumin promoter binding protein 3.815 21.000 NM_016974 Gvin1 GTPase, very large interferon inducible 1 3.805 20.833 NM_029000 Car8 carbonic anhydrase 8 3.801 59.322 NM_007592 Prl3c1 prolactin family 3, subfamily c, member 1 3.790 58.571 NM_013766 Cpxm1 carboxypeptidase X 1 (M14 family) 3.786 10.967 NM_019696 Snap25 synaptosomal-associated protein 25 3.784 4.985 NM_011428 Slc36a2 solute carrier family 36 (proton/amino acid symporter), member 2 3.778 57.857 NM_153170 Agtr2 angiotensin II receptor, type 2 3.775 30.307 NM_007429 Bst2 bone marrow stromal cell antigen 2 3.755 10.755 NM_198095 Itgam integrin alpha M 3.753 4.919 NM_001082960 Kcng2 potassium voltage-gated channel, subfamily G, member 2 3.742 29.407 NM_001190373 Nrn1 neuritin 1 3.740 19.790 NM_153529 Ftl1 ferritin light chain 1 3.731 4.873 NM_010240 Apoa2 apolipoprotein A-II 3.729 54.913 NM_013474 Pamr1 peptidase domain containing associated with muscle regeneration 1 3.724 19.534 NM_173749 Zfp874a zinc finger protein 874a 3.720 54.366 NM_177712 Ch25h cholesterol 25-hydroxylase 3.717 19.438 NM_009890 Ppp1r3c protein phosphatase 1, regulatory (inhibitor) subunit 3C 3.712 53.933 NM_016854 Unc5a unc-5 homolog A 3.707 28.494 NM_153131 Prdm9 PR domain containing 9 3.702 19.206 NM_144809 Il6 interleukin 6 3.698 19.133 NM_031168 Hexim2 hexamthylene bis-acetamide inducible 2 3.693 4.795 NM_027658 Il23a interleukin 23, alpha subunit p19 3.677 51.918 NM_031252 Cygb cytoglobin 3.668 18.694 NM_030206 Hist1h2ba histone cluster 1, H2ba 3.658 10.117 NM_175663 Serpina3c serine (or cysteine) peptidase inhibitor, clade A, member 3C 3.643 50.071 NM_008458 Spag17 sperm associated antigen 17 3.633 49.580 NM_028892 Tnfrsf18 tumor necrosis factor receptor superfamily, member 18 3.617 26.269 NM_009400 Orm2 orosomucoid 2 3.593 47.499 NM_011016 Mmp3 matrix metallopeptidase 3 3.584 8.272 NM_010809 Cd40 CD40 antigen 3.578 17.394 NM_011611 Glyat glycine-N-acyltransferase 3.557 45.704 NM_145935 Nnmt nicotinamide N-methyltransferase 3.550 17.014 NM_010924 Nrxn2 neurexin II 3.536 16.829 NM_001205234 Ubd ubiquitin D 3.532 44.518 NM_023137 Xdh xanthine dehydrogenase 3.527 16.703 NM_011723 Tmem176a transmembrane protein 176A 3.522 9.279 NM_025326 Lpl lipoprotein lipase 3.520 9.270 NM_008509 Nudt18 nudix (nucleoside diphosphate linked moiety X)-type motif 18 3.498 23.577 NM_153136 Serpina3g serine (or cysteine) peptidase inhibitor, clade A, member 3G 3.485 9.066 NM_009251 Krt222 keratin 222 3.470 7.733 NM_172946 Tmem179 transmembrane protein 179 3.465 15.897 NM_178915 Gpm6b glycoprotein m6b 3.464 15.883 NM_001177956 Gch1 GTP cyclohydrolase 1 3.457 8.909 NM_008102 Bace2 beta-site APP-cleaving enzyme 2 3.427 39.787 NM_019517 Hmox1 heme oxygenase (decycling) 1 3.421 7.514 NM_010442 Slc8a3 solute carrier family 8 (sodium/calcium exchanger), member 3 3.418 7.500 NM_080440 Plin5 perilipin 5 3.415 39.259 NM_001077348 Dnmt3l DNA (cytosine-5-) 3.406 21.700 NM_019448 -methyltransferase 3-like C1ra complement component 1, r subcomponent A 3.397 15.057 NM_023143 C4b complement component 4B (Childo blood group) 3.392 21.417 NM_009780 Ltbp2 latent transforming growth factor beta binding protein 2 3.391 4.212 NM_013589 S100a8 S100 calcium binding protein A8 (calgranulin A) 3.371 21.012 NM_013650 Sult4a1 sulfotransferase family 4A, member 1 3.370 14.743 NM_013873 Trim30a tripartite motif-containing 30A 3.361 37.054 NM_009099 S100b S100 protein, beta polypeptide, neural 3.354 14.556 NM_009115 Cyp1a1 cytochrome P450, family 1, subfamily a, polypeptide 1 3.351 36.694 NM_009992 Fgf1 fibroblast growth factor 1 3.341 36.288 NM_010197 C1qtnf7 C1q and
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    Oncotarget, December, Vol.4, No 12 Impaired angiogenesis and tumor development by inhibition of the mitotic kinesin Eg5 Prisca Exertier1,2, Sophie Javerzat1,2, Baigang Wang3,8, Mélanie Franco1,2, John Herbert4, Natalia Platonova1,2, Marie Winandy5, Nadège Pujol1,2, Olivier Nivelles6, Sandra Ormenese7, Virginie Godard1,2, Jürgen Becker8, Roy Bicknell4, Raphael Pineau9, Jörg Wilting8*, Andreas Bikfalvi1,2*, Martin Hagedorn1,2* 1 Univ. Bordeaux, LAMC, UMR 1029, F-33405 Talence, France 2 INSERM, LAMC, UMR 1029, F-33405 Talence, France 3 Ruhr-Universität Bochum, Medizinische Fakultät; Abt. f. Anatomie und Embryologie, D-44780 Bochum, Germany 4 Molecular Angiogenesis Group, Institute of Biomedical Research, Univ Birmingham, Medical School, Edgbaston, Birmingham, UK 5 GIGA, Zebrafish Facility, Tour B34, Université de Liège, Belgium 6 GIGA, Unité de Biologie Moléculaire et Génie Génétique, Tour B34, Université de Liège, Belgium 7 GIGA, Imaging and Flow Cytometry Facility, Tour B34, Université de Liege, Belgium 8 Zentrum Anatomie, Abteilung Anatomie und Zellbiologie, Georg-August-Universität Goettingen, Germany 9 Animalerie mutualisée, University of Bordeaux I, Talence, France * Co-PIs Correspondence to: Martin Hagedorn, email: [email protected] Keywords: Angiogenesis, Eg5 kinesin, Mklp2 kinesin, VEGF, ispinesib Received: October 11, 2013 Accepted: October 24, 2013 Published: October 26, 2013 This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. ABSTRACT: Kinesin motor proteins exert essential cellular functions in all eukaryotes. They control mitosis, migration and intracellular transport through interaction with microtubules. Small molecule inhibitors of the mitotic kinesin KiF11/Eg5 are a promising new class of anti-neoplastic agents currently evaluated in clinical cancer trials for solid tumors and hematological malignancies.
  • Areca Catechu-(Betel-Nut)-Induced Whole Transcriptome Changes Associated With

    Areca Catechu-(Betel-Nut)-Induced Whole Transcriptome Changes Associated With

    bioRxiv preprint doi: https://doi.org/10.1101/2020.08.03.233932; this version posted August 3, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. 1 Areca catechu-(Betel-nut)-induced whole transcriptome changes associated with 2 diabetes, obesity and metabolic syndrome in a human monocyte cell line 3 4 Short title: Betel-nut induced whole transcriptome changes 5 6 7 Shirleny Cardoso1¶ , B. William Ogunkolade1¶, Rob Lowe2, Emanuel Savage3, Charles A 8 Mein3, Barbara J Boucher1, Graham A Hitman1* 9 10 11 1Centre for Genomics and Child Health, Blizard Institute, Barts and the London School of 12 Medicine and Dentistry, Queen Mary University of London, United Kingdom 13 14 2Omnigen Biodata Ltd, Cambridge, United Kingdom 15 16 3Barts and The London Genome Centre, Blizard Institute, Queen Mary University of London, 17 United Kingdom 18 19 * Corresponding author 20 Email: [email protected] 21 22 ¶These authors contributed equally to the work 23 24 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.08.03.233932; this version posted August 3, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. 25 Abstract 26 Betel-nut consumption is the fourth most common addictive habit globally and there is good 27 evidence to link it with obesity, type 2 diabetes and the metabolic syndrome.
  • Molecular Features of Triple Negative Breast Cancer Cells by Genome-Wide Gene Expression Profiling Analysis

    Molecular Features of Triple Negative Breast Cancer Cells by Genome-Wide Gene Expression Profiling Analysis

    478 INTERNATIONAL JOURNAL OF ONCOLOGY 42: 478-506, 2013 Molecular features of triple negative breast cancer cells by genome-wide gene expression profiling analysis MASATO KOMATSU1,2*, TETSURO YOSHIMARU1*, TAISUKE MATSUO1, KAZUMA KIYOTANI1, YASUO MIYOSHI3, TOSHIHITO TANAHASHI4, KAZUHITO ROKUTAN4, RUI YAMAGUCHI5, AYUMU SAITO6, SEIYA IMOTO6, SATORU MIYANO6, YUSUKE NAKAMURA7, MITSUNORI SASA8, MITSUO SHIMADA2 and TOYOMASA KATAGIRI1 1Division of Genome Medicine, Institute for Genome Research, The University of Tokushima; 2Department of Digestive and Transplantation Surgery, The University of Tokushima Graduate School; 3Department of Surgery, Division of Breast and Endocrine Surgery, Hyogo College of Medicine, Hyogo 663-8501; 4Department of Stress Science, Institute of Health Biosciences, The University of Tokushima Graduate School, Tokushima 770-8503; Laboratories of 5Sequence Analysis, 6DNA Information Analysis and 7Molecular Medicine, Human Genome Center, Institute of Medical Science, The University of Tokyo, Tokyo 108-8639; 8Tokushima Breast Care Clinic, Tokushima 770-0052, Japan Received September 22, 2012; Accepted November 6, 2012 DOI: 10.3892/ijo.2012.1744 Abstract. Triple negative breast cancer (TNBC) has a poor carcinogenesis of TNBC and could contribute to the develop- outcome due to the lack of beneficial therapeutic targets. To ment of molecular targets as a treatment for TNBC patients. clarify the molecular mechanisms involved in the carcino- genesis of TNBC and to identify target molecules for novel Introduction anticancer drugs, we analyzed the gene expression profiles of 30 TNBCs as well as 13 normal epithelial ductal cells that were Breast cancer is one of the most common solid malignant purified by laser-microbeam microdissection. We identified tumors among women worldwide. Breast cancer is a heteroge- 301 and 321 transcripts that were significantly upregulated neous disease that is currently classified based on the expression and downregulated in TNBC, respectively.