MiRaGE: Inference of gene expression regulation via microRNA transfection II

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Volumn 6840 LNBI, Issue , 2011, Pages 129-135

  Taguchi, Y H ^a   Yasuda, Jun ^b  

^a CHUO UNIVERSITY   (Japan)

^b TOHOKU UNIVERSITY GRADUATE SCHOOL OF MEDICINE   (Japan)

Author keywords

computational inference; MicroRNA; target genes; tumor

Indexed keywords

COMPUTATIONAL INFERENCE; EXPERIMENTAL VALIDATIONS; EXPRESSION PROFILE; MICRORNAS; P-VALUES; TARGET GENES; TARGET PREDICTION; TUMOR CELLS;

COMPUTATIONAL METHODS; GENE EXPRESSION; INTELLIGENT COMPUTING; MOLECULAR BIOLOGY; TUMORS;

GENE EXPRESSION REGULATION;

EID: 84855712136     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-24553-4_19     Document Type: Conference Paper

References (14)

1. Brennecke, J., Stark, A., Russell, R.B., Cohen, S.M.: Principles of MicroRNA-targetRecognition. PLoS Biol. 3, 85 (2005)
2. Chi, S.W., Zang, J.B., Mele, A., Darnell, R.B.: Argonaute HITS-CLIP Decodes MicroRNA-mRNA Interaction Maps. Nature 460(7254), 479-486 (2009)
3. Takahashi, Y., Forrest, A.A.R., Maeno, E., Hashimoto, T., Daub, C.O., Yasuda, J.: MiR-107 and MiR-185 Can Induce Cell cycle Arrest in Human Non Small Cell Lung Cancer Cell Lines? PLoS One 4, e6677 (2009)
4. Ikeo, K., Ishii, J., Tamura, T., Gojobori, T., Tateno, Y.: CIBEX: center for information biology gene expression database. C R Biol. 326, 1079-1082 (2003)
5. Nielsen, C.B., Shomron, N., Sandberg, R., Hornstein, E., Kitzman, J., Burge, C.B.: Determinants of Targeting by Endogenous and Exogenous MicroRNAs and siRNAs. RNA 13, 1894-1910 (2007)
6. Friedman, R.C., Farh, K.K., Burge, C.B., Bartel, D.P.: Most Mammalian mRNAs are Conserved Targets of MicroRNAs. Genome Res. 19, 92-105 (2009)
7. Kertesz, M., Iovino, N., Unnerstall, U., Gaul, U., Segal, E.: The Role of Site Accessibility in MicroRNA Target Recognition. Nat. Genet. 39, 1278-1284 (2007)
8. Krek, A., Grün, D., Poy, M.N., Wolf, R., Rosenberg, L., Epstein, E.J., MacMenamin, P., da Piedade, I., Gunsalus, K.C., Stoffel, M., Rajewsky, N.: Combinatorial MicroRNA Target Predictions. Nat. Genet. 37, 495-500 (2005)
9. John, B., Enright, A.J., Aravin, A., Tuschl, T., Sander, C., Marks, D.S.: Human MicroRNA Targets. PLoS Biol. 2, e363 (2004)
10. Alexiou, P., Maragkakis, M., Papadopoulos, G.L., Reczko, M., Hatzigeorgiou, A.G.: Lost in Translation: An Assessment and Perspective for Computational MicroRNA Target Identification. Bioinformatics 25, 3049-3055 (2009)
11. Taguchi, Y.-h., Yasuda, J.: Inference of gene expression regulation via microRNA transfection. In: Huang, D.-S., Zhao, Z., Bevilacqua, V., Figueroa, J.C. (eds.) ICIC 2010. LNCS, vol. 6215, pp. 672-679. Springer, Heidelberg (2010)
12. Benjamini, Y., Hochberg, Y.: Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing. J. R. Stat. Soc. B 57, 289-300 (1995)
13. R Development Core Team, R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria (2009) ISBN 3-900051-07-0, http://www.R-project.org
14. Volinia, S., Visone, R., Galasso, M., Rossi, E., Croce, C.: Identification of MicroRNA Activity by Targets' Reverse EXpression. Bioinformatics 26, 91-97 (2010)