박사

Identification and characterization of microRNAs associated with liver fibrosis

홍재상 2016년
논문상세정보
' Identification and characterization of microRNAs associated with liver fibrosis' 의 주제별 논문영향력
논문영향력 선정 방법
논문영향력 요약
주제
  • Exosome
  • Liver fibrosis
  • microrna
동일주제 총논문수 논문피인용 총횟수 주제별 논문영향력의 평균
246 0

0.0%

' Identification and characterization of microRNAs associated with liver fibrosis' 의 참고문헌

  • 1. Lee UE et al: Mechanisms of hepatic fibrogenesis. Best Pract Res Clin Gastroenterol 2011, 25(2):195-206.
  • van der Goot FG et al: Intra-endosomal membrane traffic. Trends Cell Biol 2006, 16(10):514-521.
  • van Niel G et al: Intestinal epithelial cells secrete exosome-like vesicles. Gastroenterology 2001, 121(2):337-349.
  • van Niel G et al: Exosomes: a common pathway for a specialized function. J Biochem 2006, 140(1):13-21.
  • Yu J et al: Human microRNA clusters: genomic organization and expression profile in leukemia cell lines. Biochem Biophys Res Commun 2006, 349(1):59- 68.
  • Yan G et al: MicroRNA-34a Promotes Hepatic Stellate Cell Activation via Targeting ACSL1. Med Sci Monit 2015, 21:3008-3015.
  • Xiao F et al: miRecords: an integrated resource for microRNA-target interactions. Nucleic Acids Res 2009, 37(Database issue):D105-110.
  • Woo DH et al: Direct and indirect contribution of human embryonic stem cell-derived hepatocyte-like cells to liver repair in mice. Gastroenterology 2012, 142(3):602-611.
  • Wolfers J et al: Tumor-derived exosomes are a source of shared tumor rejection antigens for CTL cross-priming. Nat Med 2001, 7(3):297-303.
  • Welton JL et al: Proteomics analysis of bladder cancer exosomes. Mol Cell Proteomics 2010, 9(6):1324-1338.
  • Vella LJ et al: Packaging of prions into exosomes is associated with a novel pathway of PrP processing. J Pathol 2007, 211(5):582-590.
  • Vallhov H et al: Exosomes containing glycoprotein 350 released by EBVtransformed B cells selectively target B cells through CD21 and block EBV infection in vitro. J Immunol 2011, 186(1):73-82.
  • Valapala M et al: Lipid raft endocytosis and exosomal transport facilitate extracellular trafficking of annexin A2. J Biol Chem 2011, 286(35):30911- 30925.
  • Valadi H et al: Exosome-mediated transfer of mRNAs and microRNAs is a novel mechanism of genetic exchange between cells. Nat Cell Biol 2007, 9(6):654-659.
  • Ueno T et al: Hepatic stellate cells and intralobular innervation in human liver cirrhosis. Hum Pathol 1997, 28(8):953-959.
  • Tsukamoto H: Cytokine regulation of hepatic stellate cells in liver fibrosis. Alcohol Clin Exp Res 1999, 23(5):911-916.
  • Tsukada S et al: Mechanisms of liver fibrosis. Clin Chim Acta 2006, 364(1- 2):33-60.
  • Togel F et al: Vasculotropic, paracrine actions of infused mesenchymal stem cells are important to the recovery from acute kidney injury. Am J Physiol Renal Physiol 2007, 292(5):F1626-1635.
  • Tian T et al: Visualizing of the cellular uptake and intracellular trafficking of exosomes by live-cell microscopy. J Cell Biochem 2010, 111(2):488-496.
  • Thery C et al: Molecular characterization of dendritic cell-derived exosomes. Selective accumulation of the heat shock protein hsc73. J Cell Biol 1999, 147(3):599-610.
  • Thery C et al: Indirect activation of naive CD4+ T cells by dendritic cellderived exosomes. Nat Immunol 2002, 3(12):1156-1162.
  • Thery C et al: Exosomes: composition, biogenesis and function. Nat Rev Immunol 2002, 2(8):569-579.
  • Tatsumi K et al: Tissue factor triggers procoagulation in transplanted mesenchymal stem cells leading to thromboembolism. Biochem Biophys Res Commun 2013, 431(2):203-209.
  • Szabo G et al: MicroRNAs in liver disease. Nat Rev Gastroenterol Hepatol 2013, 10(9):542-552.
  • Sun W et al: microRNA: a master regulator of cellular processes for bioengineering systems. Annu Rev Biomed Eng 2010, 12:1-27.
  • Stoorvogel W et al: Late endosomes derive from early endosomes by maturation. Cell 1991, 65(3):417-427.
  • Skog J et al: Glioblastoma microvesicles transport RNA and proteins that promote tumour growth and provide diagnostic biomarkers. Nat Cell Biol 2008, 10(12):1470-1476.
  • Sekiya Y et al: Suppression of hepatic stellate cell activation by microRNA- 29b. Biochem Biophys Res Commun 2011, 412(1):74-79.
  • Seki E et al: TLR4 enhances TGF-beta signaling and hepatic fibrosis. Nat Med 2007, 13(11):1324-1332.
  • Segura E et al: CD8+ dendritic cells use LFA-1 to capture MHC-peptide complexes from exosomes in vivo. J Immunol 2007, 179(3):1489-1496.
  • Schoof CR et al: MicroRNAs in cancer treatment and prognosis. Am J Cancer Res 2012, 2(4):414-433.
  • Roderburg C et al: miR-133a mediates TGF-beta-dependent derepression of collagen synthesis in hepatic stellate cells during liver fibrosis. J Hepatol 2013, 58(4):736-742.
  • Roderburg C et al: Micro-RNA profiling reveals a role for miR-29 in human and murine liver fibrosis. Hepatology 2011, 53(1):209-218.
  • Rockey DC: Hepatic blood flow regulation by stellate cells in normal and injured liver. Semin Liver Dis 2001, 21(3):337-349.
  • Richter AS et al: Seed-based INTARNA prediction combined with GFPreporter system identifies mRNA targets of the small RNA Yfr1. Bioinformatics 2010, 26(1):1-5.
  • Rehmsmeier M et al: Fast and effective prediction of microRNA/target duplexes. RNA 2004, 10(10):1507-1517.
  • Raposo G et al: B lymphocytes secrete antigen-presenting vesicles. J Exp Med 1996, 183(3):1161-1172.
  • Raposo G et al: Accumulation of major histocompatibility complex class II molecules in mast cell secretory granules and their release upon degranulation. Mol Biol Cell 1997, 8(12):2631-2645.
  • Rajendran L et al: Alzheimer's disease beta-amyloid peptides are released in association with exosomes. Proc Natl Acad Sci U S A 2006, 103(30):11172- 11177.
  • Racine-Samson L et al: The role of alpha1beta1 integrin in wound contraction. A quantitative analysis of liver myofibroblasts in vivo and in primary culture. J Biol Chem 1997, 272(49):30911-30917.
  • Powell DW: Myofibroblasts: paracrine cells important in health and disease. Trans Am Clin Climatol Assoc 2000, 111:271-292; discussion 292-273.
  • Porto-Carreiro I et al: Prions and exosomes: from PrPc trafficking to PrPsc propagation. Blood Cells Mol Dis 2005, 35(2):143-148.
  • Pogribny IP et al: Difference in expression of hepatic microRNAs miR-29c, miR-34a, miR-155, and miR-200b is associated with strain-specific susceptibility to dietary nonalcoholic steatohepatitis in mice. Lab Invest 2010, 90(10):1437-1446.
  • Pisitkun T et al: Identification and proteomic profiling of exosomes in human urine. Proc Natl Acad Sci U S A 2004, 101(36):13368-13373.
  • Peinado H et al: Melanoma exosomes educate bone marrow progenitor cells toward a pro-metastatic phenotype through MET. Nat Med 2012, 18(6):883- 891.
  • Pegtel DM et al: Functional delivery of viral miRNAs via exosomes. Proc Natl Acad Sci U S A 2010, 107(14):6328-6333.
  • Passino MA et al: Regulation of hepatic stellate cell differentiation by the neurotrophin receptor p75NTR. Science 2007, 315(5820):1853-1856.
  • Pan Q et al: Hepatic cell-to-cell transmission of small silencing RNA can extend the therapeutic reach of RNA interference (RNAi). Gut 2012, 61(9):1330-1339.
  • Pan BT et al: Selective externalization of the transferrin receptor by sheep reticulocytes in vitro. Response to ligands and inhibitors of endocytosis. J Biol Chem 1984, 259(15):9776-9782.
  • Pan BT et al: Electron microscopic evidence for externalization of the transferrin receptor in vesicular form in sheep reticulocytes. J Cell Biol 1985, 101(3):942-948.
  • Palanisamy V et al: Nanostructural and transcriptomic analyses of human saliva derived exosomes. PLoS One 2010, 5(1):e8577.
  • Ogawa T et al: Suppression of type I collagen production by microRNA-29b in cultured human stellate cells. Biochem Biophys Res Commun 2010, 391(1):316-321.
  • Ogawa T et al: MicroRNA-221/222 upregulation indicates the activation of stellate cells and the progression of liver fibrosis. Gut 2012, 61(11):1600-1609.
  • Nolte-'t Hoen EN et al: Activated T cells recruit exosomes secreted by dendritic cells via LFA-1. Blood 2009, 113(9):1977-1981.
  • Noetel A et al: Next generation sequencing of the Ago2 interacting transcriptome identified chemokine family members as novel targets of neuronal microRNAs in hepatic stellate cells. J Hepatol 2013, 58(2):335-341.
  • Murakami Y et al: The progression of liver fibrosis is related with overexpression of the miR-199 and 200 families. PLoS One 2011, 6(1):e16081.
  • Muller A et al: Thioacetamide-induced cirrhosis-like liver lesions in rats-- usefulness and reliability of this animal model. Exp Pathol 1988, 34(4):229- 236.
  • Morita K et al: Clinical significance and potential of hepatic microRNA-122 expression in hepatitis C. Liver Int 2011, 31(4):474-484.
  • Morelli AE et al: Endocytosis, intracellular sorting, and processing of exosomes by dendritic cells. Blood 2004, 104(10):3257-3266.
  • Moreira RK: Hepatic stellate cells and liver fibrosis. Arch Pathol Lab Med 2007, 131(11):1728-1734.
  • Montecalvo A et al: Mechanism of transfer of functional microRNAs between mouse dendritic cells via exosomes. Blood 2012, 119(3):756-766.
  • Milosevic J et al: Profibrotic role of miR-154 in pulmonary fibrosis. Am J Respir Cell Mol Biol 2012, 47(6):879-887.
  • Meng F et al: Epigenetic regulation of miR-34a expression in alcoholic liver injury. Am J Pathol 2012, 181(3):804-817.
  • Mendell JT et al: MicroRNAs in stress signaling and human disease. Cell 2012, 148(6):1172-1187.
  • Maubach G et al: miRNA studies in in vitro and in vivo activated hepatic stellate cells. World J Gastroenterol 2011, 17(22):2748-2773.
  • Mathivanan S et al: Exosomes: extracellular organelles important in intercellular communication. J Proteomics 2010, 73(10):1907-1920.
  • Mathivanan S et al: ExoCarta 2012: database of exosomal proteins, RNA and lipids. Nucleic Acids Res 2012, 40(Database issue):D1241-1244.
  • Masuda H et al: Coexpression of the collagen-binding stress protein HSP47 gene and the alpha 1(I) and alpha 1(III) collagen genes in carbon tetrachloride-induced rat liver fibrosis. J Clin Invest 1994, 94(6):2481-2488.
  • Luo SS et al: Human villous trophoblasts express and secrete placentaspecific microRNAs into maternal circulation via exosomes. Biol Reprod 2009, 81(4):717-729.
  • Luk JM et al: DLK1-DIO3 genomic imprinted microRNA cluster at 14q32.2 defines a stemlike subtype of hepatocellular carcinoma associated with poor survival. J Biol Chem 2011, 286(35):30706-30713.
  • Love MI et al: Moderated estimation of fold change and dispersion for RNAseq data with DESeq2. Genome Biol 2014, 15(12):550.
  • Lim LP et al: Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs. Nature 2005, 433(7027):769-773.
  • Lim L et al: MicroRNA-494 within an oncogenic microRNA megacluster regulates G1/S transition in liver tumorigenesis through suppression of mutated in colorectal cancer. Hepatology 2014, 59(1):202-215.
  • Li X et al: microRNA-34a and microRNA-34c promote the activation of human hepatic stellate cells by targeting peroxisome proliferator-activated receptor gamma. Mol Med Rep 2015, 11(2):1017-1024.
  • Li WQ et al: The rno-miR-34 family is upregulated and targets ACSL1 in dimethylnitrosamine-induced hepatic fibrosis in rats. FEBS J 2011, 278(9):1522-1532.
  • Li T et al: Exosomes derived from human umbilical cord mesenchymal stem cells alleviate liver fibrosis. Stem Cells Dev 2013, 22(6):845-854.
  • Lee Y et al: The nuclear RNase III Drosha initiates microRNA processing. Nature 2003, 425(6956):415-419.
  • Lee Y et al: MicroRNA genes are transcribed by RNA polymerase II. EMBO J 2004, 23(20):4051-4060.
  • Le Roy C et al: Clathrin- and non-clathrin-mediated endocytic regulation of cell signalling. Nat Rev Mol Cell Biol 2005, 6(2):112-126.
  • Langmead B et al: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 2009, 10(3):R25.
  • Lakner AM et al: Inhibitory effects of microRNA 19b in hepatic stellate cellmediated fibrogenesis. Hepatology 2012, 56(1):300-310.
  • Lai RC et al: Mesenchymal stem cell exosome: a novel stem cell-based therapy for cardiovascular disease. Regen Med 2011, 6(4):481-492.
  • Kwiecinski M et al: Hepatocyte growth factor (HGF) inhibits collagen I and IV synthesis in hepatic stellate cells by miRNA-29 induction. PLoS One 2011, 6(9):e24568.
  • Krizhanovsky V et al: Senescence of activated stellate cells limits liver fibrosis. Cell 2008, 134(4):657-667.
  • Krek A et al: Combinatorial microRNA target predictions. Nat Genet 2005, 37(5):495-500.
  • Kozomara A et al: miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res 2014, 42(Database issue):D68-73.
  • Kosaka N et al: Secretory mechanisms and intercellular transfer of microRNAs in living cells. J Biol Chem 2010, 285(23):17442-17452.
  • Kogure T et al: Intercellular nanovesicle-mediated microRNA transfer: a mechanism of environmental modulation of hepatocellular cancer cell growth. Hepatology 2011, 54(4):1237-1248.
  • Kim DK et al: EVpedia: a community web portal for extracellular vesicles research. Bioinformatics 2015, 31(6):933-939.
  • Kesimer M et al: Characterization of exosome-like vesicles released from human tracheobronchial ciliated epithelium: a possible role in innate defense. FASEB J 2009, 23(6):1858-1868.
  • Keller S et al: Exosomes: from biogenesis and secretion to biological function. Immunol Lett 2006, 107(2):102-108.
  • Karlsson M et al: "Tolerosomes" are produced by intestinal epithelial cells. Eur J Immunol 2001, 31(10):2892-2900.
  • Kaimori A et al: Transforming growth factor-beta1 induces an epithelial-tomesenchymal transition state in mouse hepatocytes in vitro. J Biol Chem 2007, 282(30):22089-22101.
  • Jiao J et al: Hepatic fibrosis. Curr Opin Gastroenterol 2009, 25(3):223-229.
  • Ji J et al: Over-expressed microRNA-27a and 27b influence fat accumulation and cell proliferation during rat hepatic stellate cell activation. FEBS Lett 2009, 583(4):759-766.
  • Jeong WI et al: STAT1 inhibits liver fibrosis in mice by inhibiting stellate cell proliferation and stimulating NK cell cytotoxicity. Hepatology 2006, 44(6):1441-1451.
  • Jenjaroenpun P et al: Characterization of RNA in exosomes secreted by human breast cancer cell lines using next-generation sequencing. PeerJ 2013, 1:e201.
  • Izawa T et al: Anti-fibrotic Role of miR-214 in Thioacetamide-induced Liver Cirrhosis in Rats. Toxicol Pathol 2015, 43(6):844-851.
  • Iizuka M et al: Induction of microRNA-214-5p in human and rodent liver fibrosis. Fibrogenesis Tissue Repair 2012, 5(1):12.
  • Hyun J et al: MicroRNA-378 limits activation of hepatic stellate cells and liver fibrosis by suppressing Gli3 expression. Nat Commun 2016, 7:10993.
  • Huang da W et al: Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 2009, 4(1):44-57.
  • Hsu SD et al: miRTarBase: a database curates experimentally validated microRNA-target interactions. Nucleic Acids Res 2011, 39(Database issue):D163-169.
  • Honda N et al: miR-150 down-regulation contributes to the constitutive type I collagen overexpression in scleroderma dermal fibroblasts via the induction of integrin beta3. Am J Pathol 2013, 182(1):206-216.
  • Hernandez-Gea V et al: Pathogenesis of liver fibrosis. Annu Rev Pathol 2011, 6:425-456.
  • He Y et al: MicroRNA-146a modulates TGF-beta1-induced hepatic stellate cell proliferation by targeting SMAD4. Cell Signal 2012, 24(10):1923-1930.
  • Harding C et al: Receptor-mediated endocytosis of transferrin and recycling of the transferrin receptor in rat reticulocytes. J Cell Biol 1983, 97(2):329-339.
  • Hammond SM: Dicing and slicing: the core machinery of the RNA interference pathway. FEBS Lett 2005, 579(26):5822-5829.
  • Hammerich L et al: Chemokine receptor CCR6-dependent accumulation of gammadelta T cells in injured liver restricts hepatic inflammation and fibrosis. Hepatology 2014, 59(2):630-642.
  • Guo H et al: Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature 2010, 466(7308):835-840.
  • Guo CJ et al: Effects of upregulated expression of microRNA-16 on biological properties of culture-activated hepatic stellate cells. Apoptosis 2009, 14(11):1331-1340.
  • Guo CJ et al: Changes in microRNAs associated with hepatic stellate cell activation status identify signaling pathways. FEBS J 2009, 276(18):5163- 5176.
  • Gruenberg J: The endocytic pathway: a mosaic of domains. Nat Rev Mol Cell Biol 2001, 2(10):721-730.
  • Gressner AM: Transdifferentiation of hepatic stellate cells (Ito cells) to myofibroblasts: a key event in hepatic fibrogenesis. Kidney Int Suppl 1996, 54:S39-45.
  • Gong W et al: Isoforms and splice variant of transforming growth factor betabinding protein in rat hepatic stellate cells. Gastroenterology 1998, 114(2):352- 363.
  • Goecks J et al: Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol 2010, 11(8):R86.
  • Geerts A: History, heterogeneity, developmental biology, and functions of quiescent hepatic stellate cells. Semin Liver Dis 2001, 21(3):311-335.
  • Gatti S et al: Microvesicles derived from human adult mesenchymal stem cells protect against ischaemia-reperfusion-induced acute and chronic kidney injury. Nephrol Dial Transplant 2011, 26(5):1474-1483.
  • Furlani D et al: Is the intravascular administration of mesenchymal stem cells safe? Mesenchymal stem cells and intravital microscopy. Microvasc Res 2009, 77(3):370-376.
  • Friedman SL: Transcriptional regulation of stellate cell activation. J Gastroenterol Hepatol 2006, 21 Suppl 3:S79-83.
  • Friedman SL: Seminars in medicine of the Beth Israel Hospital, Boston. The cellular basis of hepatic fibrosis. Mechanisms and treatment strategies. N Engl J Med 1993, 328(25):1828-1835.
  • Friedman SL: Molecular regulation of hepatic fibrosis, an integrated cellular response to tissue injury. J Biol Chem 2000, 275(4):2247-2250.
  • Friedman SL: Mechanisms of disease: Mechanisms of hepatic fibrosis and therapeutic implications. Nat Clin Pract Gastroenterol Hepatol 2004, 1(2):98- 105.
  • Friedman SL: Liver fibrosis -- from bench to bedside. J Hepatol 2003, 38 Suppl 1:S38-53.
  • Friedman RC et al: Most mammalian mRNAs are conserved targets of microRNAs. Genome Res 2009, 19(1):92-105.
  • Filipe V et al: Critical evaluation of Nanoparticle Tracking Analysis (NTA) by NanoSight for the measurement of nanoparticles and protein aggregates. Pharm Res 2010, 27(5):796-810.
  • FastQC, A quality-control tool for high-throughput sequence data [http://www.bioinformatics.babraham.ac.uk/projects/fastqc]
  • Escola JM et al: Selective enrichment of tetraspan proteins on the internal vesicles of multivesicular endosomes and on exosomes secreted by human Blymphocytes. J Biol Chem 1998, 273(32):20121-20127.
  • Eng FJ et al: Transcriptional regulation in hepatic stellate cells. Semin Liver Dis 2001, 21(3):385-395.
  • Dreux M et al: Short-range exosomal transfer of viral RNA from infected cells to plasmacytoid dendritic cells triggers innate immunity. Cell Host Microbe 2012, 12(4):558-570.
  • Denzer K et al: Follicular dendritic cells carry MHC class II-expressing microvesicles at their surface. J Immunol 2000, 165(3):1259-1265.
  • Cheung O et al: Nonalcoholic steatohepatitis is associated with altered hepatic MicroRNA expression. Hepatology 2008, 48(6):1810-1820.
  • Camussi G et al: Paracrine/endocrine mechanism of stem cells on kidney repair: role of microvesicle-mediated transfer of genetic information. Curr Opin Nephrol Hypertens 2010, 19(1):7-12.
  • Caby MP et al: Exosomal-like vesicles are present in human blood plasma. Int Immunol 2005, 17(7):879-887.
  • Bruno S et al: Mesenchymal stem cell-derived microvesicles protect against acute tubular injury. J Am Soc Nephrol 2009, 20(5):1053-1067.
  • Blanchard N et al: TCR activation of human T cells induces the production of exosomes bearing the TCR/CD3/zeta complex. J Immunol 2002, 168(7):3235- 3241.
  • Bioulac-Sage P et al: Nerves and perisinusoidal cells in human liver. J Hepatol 1990, 10(1):105-112.
  • Biernacka A et al: TGF-beta signaling in fibrosis. Growth Factors 2011, 29(5):196-202.
  • Bhattacharyya S et al: Toll-like receptor 4 signaling augments transforming growth factor-beta responses: a novel mechanism for maintaining and amplifying fibrosis in scleroderma. Am J Pathol 2013, 182(1):192-205.
  • Benyon RC et al: Is liver fibrosis reversible? Gut 2000, 46(4):443-446.
  • Bataller R et al: Liver fibrosis. J Clin Invest 2005, 115(2):209-218.
  • Barad O et al: MicroRNA expression detected by oligonucleotide microarrays: system establishment and expression profiling in human tissues. Genome Res 2004, 14(12):2486-2494.
  • Bandyopadhyay S et al: Hepatitis C virus infection and hepatic stellate cell activation downregulate miR-29: miR-29 overexpression reduces hepatitis C viral abundance in culture. J Infect Dis 2011, 203(12):1753-1762.
  • Babak T et al: Probing microRNAs with microarrays: tissue specificity and functional inference. RNA 2004, 10(11):1813-1819.
  • Andre F et al: Malignant effusions and immunogenic tumour-derived exosomes. Lancet 2002, 360(9329):295-305.
  • Anders S et al: HTSeq--a Python framework to work with high-throughput sequencing data. Bioinformatics 2015, 31(2):166-169.
  • Ambros V: The functions of animal microRNAs. Nature 2004, 431(7006):350- 355.
  • Alvarez-Erviti L et al: Delivery of siRNA to the mouse brain by systemic injection of targeted exosomes. Nat Biotechnol 2011, 29(4):341-345.
  • Altuvia Y et al: Clustering and conservation patterns of human microRNAs. Nucleic Acids Res 2005, 33(8):2697-2706.
  • Alcolado R et al: Pathogenesis of liver fibrosis. Clin Sci (Lond) 1997, 92(2):103- 112.
  • Admyre C et al: Exosomes with major histocompatibility complex class II and co-stimulatory molecules are present in human BAL fluid. Eur Respir J 2003, 22(4):578-583.
  • Admyre C et al: Exosomes with immune modulatory features are present in human breast milk. J Immunol 2007, 179(3):1969-1978.