DOCSLIB.ORG

Supplementary Table 1 List of 335 Genes Differentially Expressed Between Primary (P) and Metastatic (M) Tumours

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Supplementary Table 1 List of 335 Genes Differentially Expressed Between Primary (P) and Metastatic (M) Tumours Supplementary Table 1 List of 335 genes differentially expressed between primary (P) and metastatic (M) tumours Spot ID I.M.A.G.E. UniGene Symbol Name Clone ID Cluster 296529 296529 In multiple clusters 731356 731356 Hs.140452 M6PRBP1 mannose-6-phosphate receptor binding protein 1 840942 840942 Hs.368409 HLA-DPB1 major histocompatibility complex, class II, DP beta 1 142122 142122 Hs.115912 AFAP actin filament associated protein 1891918 1891918 Hs.90073 CSE1L CSE1 chromosome segregation 1-like (yeast) 1323432 1323432 Hs.303154 IDS iduronate 2-sulfatase (Hunter syndrome) 788566 788566 Hs.80296 PCP4 Purkinje cell protein 4 591281 591281 Hs.80680 MVP major vault protein 815530 815530 Hs.172813 ARHGEF7 Rho guanine nucleotide exchange factor (GEF) 7 825312 825312 Hs.246310 ATP5J ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F6 784830 784830 Hs.412842 C10orf7 chromosome 10 open reading frame 7 840878 840878 Hs.75616 DHCR24 24-dehydrocholesterol reductase 669443 669443 Hs.158195 HSF2 heat shock transcription factor 2 2485436 2485436 Data not found 82903 82903 Hs.370937 TAPBP TAP binding protein (tapasin) 771258 771258 Hs.85258 CD8A CD8 antigen, alpha polypeptide (p32) 85128 85128 Hs.8986 C1QB complement component 1, q subcomponent, beta polypeptide 41929 41929 Hs.39252 PICALM phosphatidylinositol binding clathrin assembly protein 148469 148469 Hs.9963 TYROBP TYRO protein tyrosine kinase binding protein 415145 415145 Hs.1376 HSD11B2 hydroxysteroid (11-beta) dehydrogenase 2 810017 810017 Hs.179657 PLAUR plasminogen activator, urokinase receptor 770859 770859 Hs.149846 ITGB5 integrin, beta 5 839682 839682 Hs.458359 UBE2N ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) 487373 487373 Hs.80986 ATP5G1 ATP synthase, H+ transporting, mitochondrial F0 complex, subunit c (subunit 9), isoform 1 786607 786607 Hs.95243 TCEAL1 transcription elongation factor A (SII)-like 1 772111 772111 Hs.287460 PDZK3 PDZ domain containing 3 130156 130156 Hs.372446 AKAP10 A kinase (PRKA) anchor protein 10 139009_1 139009 Hs.418138 FN1 fibronectin 1 41406 41406 Hs.348802 BAMBI BMP and activin membrane-bound inhibitor homolog (Xenopus laevis) 823900 823900 Hs.410715 CENTB2 centaurin, beta 2 739183 739183 Data not found 291216 291216 Hs.82794 CETN2 centrin, EF-hand protein, 2 685371 685371 Hs.423348 MEN1 multiple endocrine neoplasia I 878545 878545 Hs.409634 RPL18 ribosomal protein L18 1461664 1461664 Hs.422857 BCHE butyrylcholinesterase 128783 128783 Hs.407477 PEX13 peroxisome biogenesis factor 13 110788 110788 Hs.56729 LSP1 lymphocyte-specific protein 1 413733 413733 Hs.446641 TIMP1 tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor) 853988 853988 Hs.108104 UBE2L3 ubiquitin-conjugating enzyme E2L 3 825451 825451 Hs.325948 VDP vesicle docking protein p115 809421 809421 Hs.3192 PCBD 6-pyruvoyl-tetrahydropterin synthase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 825726 825726 Hs.111749 PMS1 PMS1 postmeiotic segregation increased 1 (S. cerevisiae) 42627 42627 Hs.21016 COCH coagulation factor C homolog, cochlin (Limulus polyphemus) 487425 487425 Hs.528302 CETN3 centrin, EF-hand protein, 3 (CDC31 homolog, yeast) 488303 488303 Hs.153884 APACD ATP binding protein associated with cell differentiation 810504 810504 Hs.77422 PLP2 proteolipid protein 2 (colonic epithelium- enriched) 283034 283034 Hs.372616 ARL1 ADP-ribosylation factor-like 1 788286 788286 Hs.439530 DYRK4 dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 4 302310 302310 Hs.232058 CDNA FLJ36340 fis, clone THYMU2006468 782800 782800 Hs.355735 UQCRFS1 ubiquinol-cytochrome c reductase, Rieske iron- sulfur polypeptide 1 289143 289143 Hs.421150 ZCWCC3 zinc finger, CW-type with coiled-coil domain 3 149013 149013 Hs.159118 AMD1 adenosylmethionine decarboxylase 1 878129 878129 Hs.157429 SOX3 SRY (sex determining region Y)-box 3 784319 784319 Data not found 839888 839888 Hs.7768 FIBP fibroblast growth factor (acidic) intracellular binding protein 46786 46786 In multiple clusters 783721 783721 Hs.307944 SEPT8 septin 8 796198 796198 Hs.30942 EFNB2 ephrin-B2 204148 204148 Hs.188361 RPS6KA3 ribosomal protein S6 kinase, 90kDa, polypeptide 3 141966 141966 Hs.364941 HSD3B1 hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 1 809648 809648 Hs.440835 SF1 splicing factor 1 814095 814095 Hs.81118 LTA4H leukotriene A4 hydrolase 179534 179534 Hs.4975 KCNQ2 potassium voltage-gated channel, KQT-like subfamily, member 2 35077 35077 Hs.21639 APEG1 aortic preferentially expressed protein 1 842884_1 842884 Hs.115474 RFC3 replication factor C (activator 1) 3, 38kDa 276449 276449 Hs.255230 GUSB glucuronidase, beta 884766 884766 Hs.35052 TEGT testis enhanced gene transcript (BAX inhibitor 1) 291255 291255 Hs.406455 PSAP prosaposin (variant Gaucher disease and variant metachromatic leukodystrophy) 139009 139009 Hs.418138 FN1 fibronectin 1 34849 34849 In multiple clusters 80399 80399 Hs.68714 SFRS1 splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor) 120881 120881 Hs.223025 RAB31 RAB31, member RAS oncogene family 773922 773922 In multiple clusters 714210 714210 Hs.54649 RY1 putative nucleic acid binding protein RY-1 842971 842971 Hs.412597 DSG2 desmoglein 2 842863 842863 Hs.318567 NDRG1 N-myc downstream regulated gene 1 741831 741831 Hs.439312 PLTP phospholipid transfer protein 824728 824728 Hs.25313 MCRS1 microspherule protein 1 782047 782047 Hs.428779 UNQ6077 AAAP6077 1474174 1474174 Hs.367877 MMP2 matrix metalloproteinase 2 (gelatinase A, 72kDa gelatinase, 72kDa type IV collagenase) 795191 795191 Hs.390623 XPNPEP1 X-prolyl aminopeptidase (aminopeptidase P) 1, soluble 824552 824552 Hs.169388 CD99L2 CD99 antigen-like 2 950367 950367 Hs.7957 ADAR adenosine deaminase, RNA-specific 49352 49352 Hs.386741 ANXA7 annexin A7 771084 771084 Hs.12272 BECN1 beclin 1 (coiled-coil, myosin-like BCL2 interacting protein) 143306 143306 Hs.446566 CDNA clone IMAGE:4801360, with apparent retained intron 2095412 2095412 Hs.449070 RPL13A ribosomal protein L13a 840990 840990 Hs.348387 GSTM4 glutathione S-transferase M4 810117 810117 Hs.75510 ANXA11 annexin A11 1404841 1404841 Data not found 120108 120108 Hs.445534 PER1 period homolog 1 (Drosophila) 35185 35185 Hs.89768 GABRB1 gamma-aminobutyric acid (GABA) A receptor, beta 1 810512 810512 Hs.164226 THBS1 thrombospondin 1 80109_1 80109 In multiple clusters 814381 814381 Hs.75189 DAP death-associated protein 51447 51447 Hs.372679 FCGR3A Fc fragment of IgG, low affinity IIIa, receptor for (CD16) 884355 884355 Data not found 49351 49351 Hs.21432 PLXN3 likely ortholog of mouse plexin 3 868575 868575 Hs.420569 DSIPI delta sleep inducing peptide, immunoreactor 711768 711768 Hs.76057 GALE galactose-4-epimerase, UDP- 703581 703581 Hs.1908 PRG1 proteoglycan 1, secretory granule 47021 47021 Hs.515694 Transcribed sequence with weak similarity to protein sp:O14640 (H.sapiens) DVL1_HUMAN Segment polarity protein dishevelled homolog DVL-1 487704 487704 In multiple clusters 840658 840658 Hs.227429 PTOV1 prostate tumor overexpressed gene 1 232826 232826 Hs.439511 ARPC3 actin related protein 2/3 complex, subunit 3, 21kDa 564846 564846 Hs.1540 THOC1 THO complex 1 814444 814444 Hs.279902 CRSP9 cofactor required for Sp1 transcriptional activation, subunit 9, 33kDa 243181 243181 Hs.110903 CLDN5 claudin 5 (transmembrane protein deleted in velocardiofacial syndrome) 2021468 2021468 Hs.284275 PAK2 p21 (CDKN1A)-activated kinase 2 358643 358643 Hs.23111 FARSLA phenylalanine-tRNA synthetase-like, alpha subunit 826459 826459 Hs.356739 PPP6C protein phosphatase 6, catalytic subunit 488413 488413 Hs.149436 KIF5B kinesin family member 5B 72395 72395 Hs.475654 MSTP9 macrophage stimulating, pseudogene 9 884673 884673 Hs.227823 LOC283820 hypothetical protein LOC283820 289677 289677 Hs.131727 PFAAP5 phosphonoformate immuno-associated protein 5 323474 323474 Hs.286221 ARF1 ADP-ribosylation factor 1 298155 298155 Hs.254593 ACADM acyl-Coenzyme A dehydrogenase, C-4 to C-12 straight chain 363086 363086 Hs.425633 CKMT1 creatine kinase, mitochondrial 1 (ubiquitous) 811088 811088 Hs.26988 EFNB3 ephrin-B3 2393764 2393764 Hs.443227 RFC5 replication factor C (activator 1) 5, 36.5kDa 123980 123980 Hs.147189 CTDSPL CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like 824393 824393 Hs.29285 C9orf60 chromosome 9 open reading frame 60 789011 789011 Hs.83347 AAMP angio-associated, migratory cell protein 760344 760344 Hs.2057 UMPS uridine monophosphate synthetase (orotate phosphoribosyl transferase and orotidine-5'- decarboxylase) 627542 627542 Hs.435726 BLVRA biliverdin reductase A 752873 752873 Data not found 810761 810761 Hs.26126 CLDN10 claudin 10 809784 809784 Hs.79361 KLK6 kallikrein 6 (neurosin, zyme) 591864 591864 Hs.1802 HLA-DOB major histocompatibility complex, class II, DO beta 788832 788832 Hs.296638 GDF15 growth differentiation factor 15 824531 824531 Hs.270 PSCDBP pleckstrin homology, Sec7 and coiled-coil domains, binding protein 83549 83549 Hs.376414 C1R complement component 1, r subcomponent 781222 781222 Hs.354085 TIAF1 TGFB1-induced anti-apoptotic factor 1 43207 43207 Hs.441202 GFRA2 GDNF family receptor alpha 2 768377 768377 In multiple clusters 489626 489626 Hs.75160 PFKM phosphofructokinase, muscle 810104 810104 Hs.355888 PLCB2 phospholipase C, beta 2 366481 366481 Hs.432677 KRT6B keratin 6B 229579 229579 Hs.78979 GLG1 golgi apparatus protein 1 504236 504236 Hs.1905 PRL prolactin 824041 824041 Hs.77608 SFRS9 splicing factor, arginine/serine-rich
Load more

Recommended publications
  • Amplitaq and Amplitaq Gold DNA Polymerase
    AmpliTaq and AmpliTaq Gold DNA Polymerase The Most Referenced Brand of DNA Polymerase in the World Date: 2005-05 Notes: Authors are listed alphabetically J. Biol. Chem. (223) Ezoe, S., I. Matsumura, et al. (2005). "GATA Transcription Factors Inhibit Cytokine-dependent Growth and Survival of a Hematopoietic Cell Line through the Inhibition of STAT3 Activity." J. Biol. Chem. 280(13): 13163-13170. http://www.jbc.org/cgi/content/abstract/280/13/13163 Although GATA-1 and GATA-2 were shown to be essential for the development of hematopoietic cells by gene targeting experiments, they were also reported to inhibit the growth of hematopoietic cells. Therefore, in this study, we examined the effects of GATA-1 and GATA-2 on cytokine signals. A tamoxifen-inducible form of GATA-1 (GATA-1/ERT) showed a minor inhibitory effect on interleukin-3 (IL-3)-dependent growth of an IL-3-dependent cell line Ba/F3. On the other hand, it drastically inhibited TPO-dependent growth and gp130-mediated growth/survival of Ba/F3. Similarly, an estradiol-inducible form of GATA-2 (GATA-2/ER) disrupted thrombopoietin (TPO)-dependent growth and gp130-mediated growth/survival of Ba/F3. As for this mechanism, we found that both GATA-1 and GATA-2 directly bound to STAT3 both in vitro and in vivo and inhibited its DNA-binding activity in gel shift assays and chromatin immunoprecipitation assays, whereas they hardly affected STAT5 activity. In addition, endogenous GATA-1 was found to interact with STAT3 in normal megakaryocytes, suggesting that GATA-1 may inhibit STAT3 activity in normal hematopoietic cells.
    [Show full text]
  • Silencing of Phosphoinositide-Specific
    ANTICANCER RESEARCH 34: 4069-4076 (2014) Silencing of Phosphoinositide-specific Phospholipase C ε Remodulates the Expression of the Phosphoinositide Signal Transduction Pathway in Human Osteosarcoma Cell Lines VINCENZA RITA LO VASCO1, MARTINA LEOPIZZI2, DANIELA STOPPOLONI3 and CARLO DELLA ROCCA2 Departments of 1Sense Organs , 2Medicine and Surgery Sciences and Biotechnologies and 3Biochemistry Sciences “A. Rossi Fanelli”, Sapienza University, Rome, Italy Abstract. Background: Ezrin, a member of the signal transduction pathway (5). The reduction of PIP2 ezrin–radixin–moesin family, is involved in the metastatic induces ezrin dissociation from the plasma membrane (6). spread of osteosarcoma. Ezrin binds phosphatydil inositol-4,5- The levels of PIP2 are regulated by the PI-specific bisphosphate (PIP2), a crucial molecule of the phospholipase C (PI-PLC) family (7), constituting thirteen phosphoinositide signal transduction pathway. PIP2 levels are enzymes divided into six sub-families on the basis of amino regulated by phosphoinositide-specific phospholipase C (PI- acid sequence, domain structure, mechanism of recruitment PLC) enzymes. PI-PLCε isoform, a well-characterized direct and tissue distribution (7-15). PI-PLCε, a direct effector of effector of rat sarcoma (RAS), is at a unique convergence RAS (14-15), might be the point of convergence for the point for the broad range of signaling pathways that promote broad range of signalling pathways that promote the RAS GTPase-mediated signalling. Materials and Methods. By RASGTPase-mediated signalling (16). using molecular biology methods and microscopic analyses, In previous studies, we suggested a relationship between we analyzed the expression of ezrin and PLC genes after PI-PLC expression and ezrin (17-18).
    [Show full text]
  • ACAT) in Cholesterol Metabolism: from Its Discovery to Clinical Trials and the Genomics Era
    H OH metabolites OH Review Acyl-Coenzyme A: Cholesterol Acyltransferase (ACAT) in Cholesterol Metabolism: From Its Discovery to Clinical Trials and the Genomics Era Qimin Hai and Jonathan D. Smith * Department of Cardiovascular & Metabolic Sciences, Cleveland Clinic, Cleveland, OH 44195, USA; [email protected] * Correspondence: [email protected]; Tel.: +1-216-444-2248 Abstract: The purification and cloning of the acyl-coenzyme A: cholesterol acyltransferase (ACAT) enzymes and the sterol O-acyltransferase (SOAT) genes has opened new areas of interest in cholesterol metabolism given their profound effects on foam cell biology and intestinal lipid absorption. The generation of mouse models deficient in Soat1 or Soat2 confirmed the importance of their gene products on cholesterol esterification and lipoprotein physiology. Although these studies supported clinical trials which used non-selective ACAT inhibitors, these trials did not report benefits, and one showed an increased risk. Early genetic studies have implicated common variants in both genes with human traits, including lipoprotein levels, coronary artery disease, and Alzheimer’s disease; however, modern genome-wide association studies have not replicated these associations. In contrast, the common SOAT1 variants are most reproducibly associated with testosterone levels. Keywords: cholesterol esterification; atherosclerosis; ACAT; SOAT; inhibitors; clinical trial Citation: Hai, Q.; Smith, J.D. Acyl-Coenzyme A: Cholesterol Acyltransferase (ACAT) in Cholesterol Metabolism: From Its 1. Introduction Discovery to Clinical Trials and the The acyl-coenzyme A:cholesterol acyltransferase (ACAT; EC 2.3.1.26) enzyme family Genomics Era. Metabolites 2021, 11, consists of membrane-spanning proteins, which are primarily located in the endoplasmic 543. https://doi.org/10.3390/ reticulum [1].
    [Show full text]
  • CYP2A6) by P53
    Transcriptional Regulation of Human Stress Responsive Cytochrome P450 2A6 (CYP2A6) by p53 Hao Hu M.Biotech. (Biotechnology) 2012 The University of Queensland B.B.A. 2009 University of Electronic Science and Technology of China B.Sc. (Pharmacy) 2009 University of Electronic Science and Technology of China A thesis submitted for the degree of Doctor of Philosophy at The University of Queensland in 2016 School of Medicine ABSTRACT Human cytochrome P450 (CYP) 2A6 is highly expressed in the liver and the encoding gene is regulated by various stress activated transcription factors, such as the nuclear factor (erythroid-derived 2)-like 2 (Nrf-2). Unlike the other xenobiotic metabolising CYP enzymes (XMEs), CYP2A6 only plays a minor role in xenobiotic metabolism. The CYP2A6 is highly induced by multiple forms of cellular stress conditions, where XMEs expression is normally inhibited. Recent findings suggest that the CYP2A6 plays an important role in regulating BR homeostasis. A computer based sequence analysis on the 3 kb proximate CYP2A6 promoter revealed several putative binding sites for p53, a protein that mediates regulation of antioxidant and apoptosis pathways. In this study, the role of p53 in CYP2A6 gene regulation is demonstrated. The site closest to transcription start site (TSS) is highly homologous with the p53 consensus sequence. The p53 responsiveness of this site was confirmed by transfections with various stepwise deleted of CYP2A6-5’-Luc constructs containing the putative p53RE. Deletion of the putative p53RE resulted in a total abolishment of p53 responsiveness of CYP2A6 promoter. Specific binding of p53 to the putative p53RE was detected by electrophoresis mobility shift assay.
    [Show full text]
  • 1 Metabolic Dysfunction Is Restricted to the Sciatic Nerve in Experimental
    Page 1 of 255 Diabetes Metabolic dysfunction is restricted to the sciatic nerve in experimental diabetic neuropathy Oliver J. Freeman1,2, Richard D. Unwin2,3, Andrew W. Dowsey2,3, Paul Begley2,3, Sumia Ali1, Katherine A. Hollywood2,3, Nitin Rustogi2,3, Rasmus S. Petersen1, Warwick B. Dunn2,3†, Garth J.S. Cooper2,3,4,5* & Natalie J. Gardiner1* 1 Faculty of Life Sciences, University of Manchester, UK 2 Centre for Advanced Discovery and Experimental Therapeutics (CADET), Central Manchester University Hospitals NHS Foundation Trust, Manchester Academic Health Sciences Centre, Manchester, UK 3 Centre for Endocrinology and Diabetes, Institute of Human Development, Faculty of Medical and Human Sciences, University of Manchester, UK 4 School of Biological Sciences, University of Auckland, New Zealand 5 Department of Pharmacology, Medical Sciences Division, University of Oxford, UK † Present address: School of Biosciences, University of Birmingham, UK *Joint corresponding authors: Natalie J. Gardiner and Garth J.S. Cooper Email: [email protected]; [email protected] Address: University of Manchester, AV Hill Building, Oxford Road, Manchester, M13 9PT, United Kingdom Telephone: +44 161 275 5768; +44 161 701 0240 Word count: 4,490 Number of tables: 1, Number of figures: 6 Running title: Metabolic dysfunction in diabetic neuropathy 1 Diabetes Publish Ahead of Print, published online October 15, 2015 Diabetes Page 2 of 255 Abstract High glucose levels in the peripheral nervous system (PNS) have been implicated in the pathogenesis of diabetic neuropathy (DN). However our understanding of the molecular mechanisms which cause the marked distal pathology is incomplete. Here we performed a comprehensive, system-wide analysis of the PNS of a rodent model of DN.
    [Show full text]
  • Supplementary Materials
    1 Supplementary Materials: Supplemental Figure 1. Gene expression profiles of kidneys in the Fcgr2b-/- and Fcgr2b-/-. Stinggt/gt mice. (A) A heat map of microarray data show the genes that significantly changed up to 2 fold compared between Fcgr2b-/- and Fcgr2b-/-. Stinggt/gt mice (N=4 mice per group; p<0.05). Data show in log2 (sample/wild-type). 2 Supplemental Figure 2. Sting signaling is essential for immuno-phenotypes of the Fcgr2b-/-lupus mice. (A-C) Flow cytometry analysis of splenocytes isolated from wild-type, Fcgr2b-/- and Fcgr2b-/-. Stinggt/gt mice at the age of 6-7 months (N= 13-14 per group). Data shown in the percentage of (A) CD4+ ICOS+ cells, (B) B220+ I-Ab+ cells and (C) CD138+ cells. Data show as mean ± SEM (*p < 0.05, **p<0.01 and ***p<0.001). 3 Supplemental Figure 3. Phenotypes of Sting activated dendritic cells. (A) Representative of western blot analysis from immunoprecipitation with Sting of Fcgr2b-/- mice (N= 4). The band was shown in STING protein of activated BMDC with DMXAA at 0, 3 and 6 hr. and phosphorylation of STING at Ser357. (B) Mass spectra of phosphorylation of STING at Ser357 of activated BMDC from Fcgr2b-/- mice after stimulated with DMXAA for 3 hour and followed by immunoprecipitation with STING. (C) Sting-activated BMDC were co-cultured with LYN inhibitor PP2 and analyzed by flow cytometry, which showed the mean fluorescence intensity (MFI) of IAb expressing DC (N = 3 mice per group). 4 Supplemental Table 1. Lists of up and down of regulated proteins Accession No.
    [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]
  • Characterisation of Bilirubin Metabolic Pathway in Hepatic Mitochondria Siti Nur Fadzilah Muhsain M.Sc
    Characterisation of Bilirubin Metabolic Pathway in Hepatic Mitochondria Siti Nur Fadzilah Muhsain M.Sc. (Medical Research) 2005 Universiti Sains Malaysia Postgrad. Dip. (Toxicology) 2003 University of Surrey B.Sc.(Biomed. Sc.) 2000 Universiti Putra Malaysia A thesis submitted for the degree of Doctor of Philosophy at The University of Queensland in 2014 School of Medicine ABSTRACT Bilirubin (BR), a toxic waste product of degraded haem, is a potent antioxidant at physiological concentrations. To achieve the maximum benefit of BR, its intracellular level needs to be carefully regulated. A system comprising of two enzymes, haem oxygenase-1 (HMOX1) and cytochrome P450 2A5 (CYP2A5) exists in the endoplasmic reticulum (ER), responsible for regulating BR homeostasis. This system is induced in response to oxidative stress. In this thesis, oxidative stress caused accumulation of these enzymes in mitochondria — major producers and targets of reactive oxygen species (ROS) — is demonstrated. To understand the significance of this intracellular targeting, properties of microsomal and mitochondrial BR metabolising enzymes were compared and the capacity of mitochondrial CYP2A5 to oxidise BR in response to oxidative stress is reported. Microsomes and mitochondrial fractions were isolated from liver homogenates of DBA/2J mice, administered with sub-toxic dose of pyrazole, an oxidant stressor. The purity of extracted organelles was determined by analysing the expressions and activities of their respective marker enzymes. HMOX1 and CYP2A5 were significantly increased in microsomes and even more so in mitochondria in response to pyrazole-induced oxidative stress. By contrast, the treatment did not increase either microsomes or mitochondrial Uridine-diphosphate-glucuronosyltransferase 1A1 (UGT1A1), the sole enzyme that catalyses BR elimination through glucuronidation.
    [Show full text]
  • 4-6 Weeks Old Female C57BL/6 Mice Obtained from Jackson Labs Were Used for Cell Isolation
    Methods Mice: 4-6 weeks old female C57BL/6 mice obtained from Jackson labs were used for cell isolation. Female Foxp3-IRES-GFP reporter mice (1), backcrossed to B6/C57 background for 10 generations, were used for the isolation of naïve CD4 and naïve CD8 cells for the RNAseq experiments. The mice were housed in pathogen-free animal facility in the La Jolla Institute for Allergy and Immunology and were used according to protocols approved by the Institutional Animal Care and use Committee. Preparation of cells: Subsets of thymocytes were isolated by cell sorting as previously described (2), after cell surface staining using CD4 (GK1.5), CD8 (53-6.7), CD3ε (145- 2C11), CD24 (M1/69) (all from Biolegend). DP cells: CD4+CD8 int/hi; CD4 SP cells: CD4CD3 hi, CD24 int/lo; CD8 SP cells: CD8 int/hi CD4 CD3 hi, CD24 int/lo (Fig S2). Peripheral subsets were isolated after pooling spleen and lymph nodes. T cells were enriched by negative isolation using Dynabeads (Dynabeads untouched mouse T cells, 11413D, Invitrogen). After surface staining for CD4 (GK1.5), CD8 (53-6.7), CD62L (MEL-14), CD25 (PC61) and CD44 (IM7), naïve CD4+CD62L hiCD25-CD44lo and naïve CD8+CD62L hiCD25-CD44lo were obtained by sorting (BD FACS Aria). Additionally, for the RNAseq experiments, CD4 and CD8 naïve cells were isolated by sorting T cells from the Foxp3- IRES-GFP mice: CD4+CD62LhiCD25–CD44lo GFP(FOXP3)– and CD8+CD62LhiCD25– CD44lo GFP(FOXP3)– (antibodies were from Biolegend). In some cases, naïve CD4 cells were cultured in vitro under Th1 or Th2 polarizing conditions (3, 4).
    [Show full text]
  • Survival-Associated Metabolic Genes in Colon and Rectal Cancers
    Survival-associated Metabolic Genes in Colon and Rectal Cancers Yanfen Cui ( [email protected] ) Tianjin Cancer Institute: Tianjin Tumor Hospital https://orcid.org/0000-0001-7760-7503 Baoai Han tianjin tumor hospital He Zhang tianjin tumor hospital Zhiyong Wang tianjin tumor hospital Hui Liu tianjin tumor hospital Fei Zhang tianjin tumor hospital Ruifang Niu tianjin tumor hospital Research Keywords: colon cancer, rectal cancer, prognosis, metabolism Posted Date: December 4th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-117478/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/42 Abstract Background Uncontrolled proliferation is the most prominent biological feature of tumors. To rapidly proliferate and maximize the use of available nutrients, tumor cells regulate their metabolic behavior and the expression of metabolism-related genes (MRGs). In this study, we aimed to construct prognosis models for colon and rectal cancers, using MRGs to indicate the prognoses of patients. Methods We rst acquired the gene expression proles of colon and rectal cancers from the TCGA and GEO database, and utilized univariate Cox analysis, lasso regression, and multivariable cox analysis to identify MRGs for risk models. Then GSEA and KEGG functional enrichment analysis were utilized to identify the metabolism pathway of MRGs in the risk models and analyzed these genes comprehensively using GSCALite. Results Eight genes (CPT1C, PLCB2, PLA2G2D, GAMT, ENPP2, PIP4K2B, GPX3, and GSR) in the colon cancer risk model and six genes (TDO2, PKLR, GAMT, EARS2, ACO1, and WAS) in the rectal cancer risk model were identied successfully. Multivariate Cox analysis indicated that the models predicted overall survival accurately and independently for patients with colon or rectal cancer.
    [Show full text]
  • Heme Oxygenase-1 Regulates Mitochondrial Quality Control in the Heart
    RESEARCH ARTICLE Heme oxygenase-1 regulates mitochondrial quality control in the heart Travis D. Hull,1,2 Ravindra Boddu,1,3 Lingling Guo,2,3 Cornelia C. Tisher,1,3 Amie M. Traylor,1,3 Bindiya Patel,1,4 Reny Joseph,1,3 Sumanth D. Prabhu,1,4,5 Hagir B. Suliman,6 Claude A. Piantadosi,7 Anupam Agarwal,1,3,5 and James F. George2,3,4 1Department of Medicine, 2Department of Surgery, 3Nephrology Research and Training Center, and 4Comprehensive Cardiovascular Center, University of Alabama at Birmingham, Birmingham, Alabama, USA. 5Department of Veterans Affairs, Birmingham, Alabama, USA. 6Department of Anesthesiology and 7Department of Pulmonary, Allergy and Critical Care, Duke University School of Medicine, Durham, North Carolina, USA. The cardioprotective inducible enzyme heme oxygenase-1 (HO-1) degrades prooxidant heme into equimolar quantities of carbon monoxide, biliverdin, and iron. We hypothesized that HO-1 mediates cardiac protection, at least in part, by regulating mitochondrial quality control. We treated WT and HO-1 transgenic mice with the known mitochondrial toxin, doxorubicin (DOX). Relative to WT mice, mice globally overexpressing human HO-1 were protected from DOX-induced dilated cardiomyopathy, cardiac cytoarchitectural derangement, and infiltration of CD11b+ mononuclear phagocytes. Cardiac-specific overexpression of HO-1 ameliorated DOX-mediated dilation of the sarcoplasmic reticulum as well as mitochondrial disorganization in the form of mitochondrial fragmentation and increased numbers of damaged mitochondria in autophagic vacuoles. HO-1 overexpression promotes mitochondrial biogenesis by upregulating protein expression of NRF1, PGC1α, and TFAM, which was inhibited in WT animals treated with DOX. Concomitantly, HO-1 overexpression inhibited the upregulation of the mitochondrial fission mediator Fis1 and resulted in increased expression of the fusion mediators, Mfn1 and Mfn2.
    [Show full text]
  • CDH12 Cadherin 12, Type 2 N-Cadherin 2 RPL5 Ribosomal
    5 6 6 5 . 4 2 1 1 1 2 4 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 2 A A A A A A A A A A A A A A A A A A A A C C C C C C C C C C C C C C C C C C C C R R R R R R R R R R R R R R R R R R R R B , B B B B B B B B B B B B B B B B B B B , 9 , , , , 4 , , 3 0 , , , , , , , , 6 2 , , 5 , 0 8 6 4 , 7 5 7 0 2 8 9 1 3 3 3 1 1 7 5 0 4 1 4 0 7 1 0 2 0 6 7 8 0 2 5 7 8 0 3 8 5 4 9 0 1 0 8 8 3 5 6 7 4 7 9 5 2 1 1 8 2 2 1 7 9 6 2 1 7 1 1 0 4 5 3 5 8 9 1 0 0 4 2 5 0 8 1 4 1 6 9 0 0 6 3 6 9 1 0 9 0 3 8 1 3 5 6 3 6 0 4 2 6 1 0 1 2 1 9 9 7 9 5 7 1 5 8 9 8 8 2 1 9 9 1 1 1 9 6 9 8 9 7 8 4 5 8 8 6 4 8 1 1 2 8 6 2 7 9 8 3 5 4 3 2 1 7 9 5 3 1 3 2 1 2 9 5 1 1 1 1 1 1 5 9 5 3 2 6 3 4 1 3 1 1 4 1 4 1 7 1 3 4 3 2 7 6 4 2 7 2 1 2 1 5 1 6 3 5 6 1 3 6 4 7 1 6 5 1 1 4 1 6 1 7 6 4 7 e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e e l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l l p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p p m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m m
    [Show full text]