Type I and type II interferon responses in two human liver cell lines (Huh-7 and HuH6)

Genomics Data

Volumn 7, Issue , 2016, Pages 166-170

  Grünvogel, Oliver ^a   Esser Nobis, Katharina ^a   Windisch, Marc P ^a,d   Frese, Michael ^a,e   Trippler, Martin ^b   Bartenschlager, Ralf ^a,c   Lohmann, Volker ^a   Binder, Marco ^c  

^a UNIVERSITY OF HEIDELBERG   (Germany)

^b UNIVERSITY OF DUISBURG ESSEN   (Germany)

^c GERMAN CANCER RESEARCH CENTER DKFZ   (Germany)

^d Institute Pasteur Korea   (South Korea)

^e UNIVERSITY OF CANBERRA   (Australia)

Author keywords

Gene expression profile; Huh 7; HuH6; IFN ; IFN ; Interferon

Indexed keywords

2',5' OLIGOADENYLATE SYNTHETASE; ABC TRANSPORTER; ALPHA INTERFERON; COMPLEMENTARY DNA; CXCL1 CHEMOKINE; CXCL11 CHEMOKINE; CXCL2 CHEMOKINE; CXCL9 CHEMOKINE; CYTIDINE PHOSPHATE; DEAD BOX PROTEIN; GAMMA INTERFERON; GAMMA INTERFERON INDUCIBLE PROTEIN 10; GUANINE NUCLEOTIDE BINDING PROTEIN; INTERFERON REGULATORY FACTOR 9; MEMBRANE PROTEIN; MYXOVIRUS RESISTANCE PROTEIN; NICOTINAMIDE METHYLTRANSFERASE; PROTEASOME; RETINOIC ACID RECEPTOR; RNA; TETRATRICOPEPTIDE REPEAT PROTEIN; UBIQUITIN; UBIQUITIN CONJUGATING ENZYME; UBIQUITIN PROTEIN LIGASE E3;

AGAR GEL ELECTROPHORESIS; ARTICLE; CELL CULTURE; GENE EXPRESSION; HEPATITIS C; HEPATOBLASTOMA CELL LINE; HUMAN; HUMAN CELL; IMMUNE RESPONSE; MICROARRAY ANALYSIS; PRIORITY JOURNAL; RNA ISOLATION; SIGNAL PROCESSING; SIGNAL TRANSDUCTION; TRANSCRIPTION REGULATION; UPREGULATION; VIRUS REPLICATION;

EID: 84954313573     PISSN: 22135960     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gdata.2015.12.017     Document Type: Article

References (23)

1. Lohmann V., Bartenschlager R. On the history of hepatitis C virus cell culture systems. J. Med. Chem. 2014, 57:1627-1642.
2. Frese M., Pietschmann T., Moradpour D., Haller O., Bartenschlager R. Interferon-alpha inhibits hepatitis C virus subgenomic RNA replication by an MxA-independent pathway. J. Gen. Virol. 2001, 82:723-733.
3. Frese M., Schwarzle V., Barth K., Krieger N., Lohmann V., Mihm S., Haller O., Bartenschlager R. Interferon-gamma inhibits replication of subgenomic and genomic hepatitis C virus RNAs. Hepatology 2002, 35:694-703.
4. Windisch M.P., Frese M., Kaul A., Trippler M., Lohmann V., Bartenschlager R. Dissecting the interferon-induced inhibition of hepatitis C virus replication by using a novel host cell line. J. Virol. 2005, 79:13778-13793.
5. Chomczynski P., Sacchi N. Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Anal. Biochem. 1987, 162.
6. Durig J., Nuckel H., Huttmann A., Kruse E., Holter T., Halfmeyer K., Fuhrer A., Rudolph R., Kalhori N., Nusch A., Deaglio S., Malavasi F., Moroy T., Klein-Hitpass L., Duhrsen U. Expression of ribosomal and translation-associated genes is correlated with a favorable clinical course in chronic lymphocytic leukemia. Blood 2003, 101:2748-2755.
7. Kallio M.A., Tuimala J.T., Hupponen T., Klemela P., Gentile M., Scheinin I., Koski M., Kaki J., Korpelainen E.I. Chipster: user-friendly analysis software for microarray and other high-throughput data. BMC Genomics 2011, 12:507.
8. Dai M., Wang P., Boyd A.D., Kostov G., Athey B., Jones E.G., Bunney W.E., Myers R.M., Speed T.P., Akil H., Watson S.J., Meng F. Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Res. 2005, 33.
9. Hulsen T., De V.J., Alkema W. BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams. BMC.Genomics 2008, 9:488.
10. Rusinova I., Forster S., Yu S., Kannan A., Masse M., Cumming H., Chapman R., Hertzog P.J. Interferome v2.0: an updated database of annotated interferon-regulated genes. Nucleic Acids Res. 2013, 41:D1040-D1046.
11. Brodsky L.I., Wahed A.S., Li J., Tavis J.E., Tsukahara T., Taylor M.W. A novel unsupervised method to identify genes important in the anti-viral response: application to interferon/ribavirin in hepatitis C patients. PLoS.One 2007, 2.
12. de Veer M.J., Holko M., Frevel M., Walker E., Der S., Paranjape J.M., Silverman R.H., Williams B.R. Functional classification of interferon-stimulated genes identified using microarrays. J. Leukoc. Biol. 2001, 69:912-920.
13. Hilkens C.M., Schlaak J.F., Kerr I.M. Differential responses to IFN-alpha subtypes in human T cells and dendritic cells. J. Immunol. 2003, 171:5255-5263.
14. Hultcrantz M., Huhn M.H., Wolf M., Olsson A., Jacobson S., Williams B.R., Korsgren O., Flodstrom-Tullberg M. Interferons induce an antiviral state in human pancreatic islet cells. Virology 2007, 367:92-101.
15. Indraccolo S., Pfeffer U., Minuzzo S., Esposito G., Roni V., Mandruzzato S., Ferrari N., Anfosso L., Dell'Eva R., Noonan D.M., Chieco-Bianchi L., Albini A., Amadori A. Identification of genes selectively regulated by IFNs in endothelial cells. J. Immunol. 2007, 178:1122-1135.
16. Lanford R.E., Guerra B., Lee H., Chavez D., Brasky K.M., Bigger C.B. Genomic response to interferon-alpha in chimpanzees: implications of rapid downregulation for hepatitis C kinetics. Hepatology 2006, 43:961-972.
17. Leaman D.W., Chawla-Sarkar M., Jacobs B., Vyas K., Sun Y., Ozdemir A., Yi T., Williams B.R., Borden E.C. Novel growth and death related interferon-stimulated genes (ISGs) in melanoma: greater potency of IFN-beta compared with IFN-alpha2. J. Interf. Cytokine Res. 2003, 23:745-756.
18. Rani M.R., Shrock J., Appachi S., Rudick R.A., Williams B.R., Ransohoff R.M. Novel interferon-beta-induced gene expression in peripheral blood cells. J. Leukoc. Biol. 2007, 82:1353-1360.
19. Sarasin-Filipowicz M., Oakeley E.J., Duong F.H., Christen V., Terracciano L., Filipowicz W., Heim M.H. Interferon signaling and treatment outcome in chronic hepatitis C. Proc. Natl. Acad. Sci. U. S. A. 2008, 105:7034-7039.
20. Schoggins J.W., Wilson S.J., Panis M., Murphy M.Y., Jones C.T., Bieniasz P., Rice C.M. A diverse range of gene products are effectors of the type I interferon antiviral response. Nature 2011, 472:481-485.
21. He X.S., Ji X., Hale M.B., Cheung R., Ahmed A., Guo Y., Nolan G.P., Pfeffer L.M., Wright T.L., Risch N., Tibshirani R., Greenberg H.B. Global transcriptional response to interferon is a determinant of HCV treatment outcome and is modified by race. Hepatology 2006, 44:352-359.
22. Grunvogel O., Esser-Nobis K., Reustle A., Schult P., Muller B., Metz P., Trippler M., Windisch M.P., Frese M., Binder M., Fackler O., Bartenschlager R., Ruggieri A., Lohmann V. DDX60L is an interferon-stimulated gene product restricting hepatitis C virus replication in cell culture. J. Virol. 2015, 89:10548-10568.
23. Schoggins J.W., MacDuff D.A., Imanaka N., Gainey M.D., Shrestha B., Eitson J.L., Mar K.B., Richardson R.B., Ratushny A.V., Litvak V., Dabelic R., Manicassamy B., Aitchison J.D., Aderem A., Elliott R.M., Garcia-Sastre A., Racaniello V., Snijder E.J., Yokoyama W.M., Diamond M.S., Virgin H.W., Rice C.M. Pan-viral specificity of IFN-induced genes reveals new roles for cGAS in innate immunity. Nature 2014, 505:691-695.