Y. Lee, K. Nakahara, J. Pham, K. Kim, and Z. He, Distinct Roles for Drosophila Dicer-1 and Dicer-2 in the siRNA/miRNA Silencing Pathways, Cell, vol.117, issue.1, pp.69-81, 2004.
DOI : 10.1016/S0092-8674(04)00261-2

J. Pham, J. Pellino, Y. Lee, R. Carthew, and E. Sontheimer, A Dicer-2-Dependent 80S Complex Cleaves Targeted mRNAs during RNAi in Drosophila, Cell, vol.117, issue.1, pp.83-94, 2004.
DOI : 10.1016/S0092-8674(04)00258-2

K. Miyoshi, H. Tsukumo, T. Nagami, H. Siomi, and M. Siomi, Slicer function of Drosophila Argonautes and its involvement in RISC formation, Genes & Development, vol.19, issue.23, pp.2837-2848, 2005.
DOI : 10.1101/gad.1370605

K. Okamura, A. Ishizuka, H. Siomi, and M. Siomi, Distinct roles for Argonaute proteins in small RNA-directed RNA cleavage pathways, Genes & Development, vol.18, issue.14, pp.1655-1666, 2004.
DOI : 10.1101/gad.1210204

M. Ghildiyal and P. Zamore, Small silencing RNAs: an expanding universe, Nature Reviews Genetics, vol.426, issue.2, pp.94-108, 2009.
DOI : 10.1038/nrg2504

D. Galiana-arnoux, C. Dostert, A. Schneemann, J. Hoffmann, and J. Imler, Essential function in vivo for Dicer-2 in host defense against RNA viruses in drosophila, Nature Immunology, vol.69, issue.6, pp.590-597, 2006.
DOI : 10.1038/ni1335

R. Van-rij, M. Saleh, B. Berry, C. Foo, and A. Houk, The RNA silencing endonuclease Argonaute 2 mediates specific antiviral immunity in Drosophila melanogaster, Genes & Development, vol.20, issue.21, pp.2985-2995, 2006.
DOI : 10.1101/gad.1482006

X. Wang, R. Aliyari, W. Li, H. Li, and K. Kim, RNA Interference Directs Innate Immunity Against Viruses in Adult Drosophila, Science, vol.312, issue.5772, pp.452-454, 2006.
DOI : 10.1126/science.1125694

B. Czech, C. Malone, R. Zhou, A. Stark, and C. Schlingeheyde, An endogenous small interfering RNA pathway in Drosophila, Nature, vol.110, issue.7196, pp.798-802, 2008.
DOI : 10.1038/nature07007

W. Chung, K. Okamura, R. Martin, and E. Lai, Endogenous RNA Interference Provides a Somatic Defense against Drosophila Transposons, Current Biology, vol.18, issue.11, pp.795-802, 2008.
DOI : 10.1016/j.cub.2008.05.006

Y. Kawamura, K. Saito, T. Kin, Y. Ono, and K. Asai, Drosophila endogenous small RNAs bind to Argonaute???2 in somatic cells, Nature, vol.35, issue.7196, pp.793-797, 2008.
DOI : 10.1038/nature06938

D. Fagegaltier, A. Bouge, B. Berry, E. Poisot, and O. Sismeiro, The endogenous siRNA pathway is involved in heterochromatin formation in Drosophila, Proceedings of the National Academy of Sciences, vol.106, issue.50, pp.21258-21263, 2009.
DOI : 10.1073/pnas.0809208105

URL : https://hal.archives-ouvertes.fr/hal-00453430

V. Kim, J. Han, and M. Siomi, Biogenesis of small RNAs in animals, Nature Reviews Molecular Cell Biology, vol.274, issue.2, pp.126-139, 2009.
DOI : 10.1038/nrm2632

W. Filipowicz, S. Bhattacharyya, and N. Sonenberg, Mechanisms of posttranscriptional regulation by microRNAs: are the answers in sight, Nat Rev Genet, vol.9, pp.102-114, 2008.

V. Gangaraju and H. Lin, MicroRNAs: key regulators of stem cells, Nature Reviews Molecular Cell Biology, vol.14, issue.2, pp.116-125, 2009.
DOI : 10.1038/nrm2621

I. Alvarez-garcia and E. Miska, MicroRNA functions in animal development and human disease, Development, vol.132, issue.21, pp.4653-4662, 2005.
DOI : 10.1242/dev.02073

G. Sotiropoulou, G. Pampalakis, E. Lianidou, and Z. Mourelatos, Emerging roles of microRNAs as molecular switches in the integrated circuit of the cancer cell, RNA, vol.15, issue.8, pp.1443-1461, 2009.
DOI : 10.1261/rna.1534709

S. Hebert, D. Strooper, and B. , Alterations of the microRNA network cause neurodegenerative disease, Trends in Neurosciences, vol.32, issue.4, pp.199-206, 2009.
DOI : 10.1016/j.tins.2008.12.003

M. Latronico and G. Condorelli, MicroRNAs and cardiac pathology, Nat Rev Cardiol, vol.6, pp.419-429, 2009.

K. Forstemann, M. Horwich, L. Wee, Y. Tomari, and P. Zamore, Drosophila microRNAs Are Sorted into Functionally Distinct Argonaute Complexes after Production by Dicer-1, Cell, vol.130, issue.2, pp.287-297, 2007.
DOI : 10.1016/j.cell.2007.05.056

Y. Tomari, T. Du, and P. Zamore, Sorting of Drosophila Small Silencing RNAs, Cell, vol.130, issue.2, pp.299-308, 2007.
DOI : 10.1016/j.cell.2007.05.057

B. Czech, R. Zhou, Y. Erlich, J. Brennecke, and R. Binari, Hierarchical Rules for Argonaute Loading in Drosophila, Molecular Cell, vol.36, issue.3, pp.445-456, 2009.
DOI : 10.1016/j.molcel.2009.09.028

M. Ghildiyal, J. Xu, H. Seitz, Z. Weng, and P. Zamore, Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway, RNA, vol.16, issue.1, pp.43-56, 2010.
DOI : 10.1261/rna.1972910

K. Okamura, N. Liu, and E. Lai, Distinct Mechanisms for MicroRNA Strand Selection by Drosophila Argonautes, Molecular Cell, vol.36, issue.3, pp.431-444, 2009.
DOI : 10.1016/j.molcel.2009.09.027

S. Dorner, L. Lum, M. Kim, R. Paro, and P. Beachy, A genomewide screen for components of the RNAi pathway in Drosophila cultured cells, Proceedings of the National Academy of Sciences, vol.103, issue.32, pp.11880-11885, 2006.
DOI : 10.1073/pnas.0605210103

A. Eulalio, J. Rehwinkel, M. Stricker, E. Huntzinger, and S. Yang, Target-specific requirements for enhancers of decapping in miRNA-mediated gene silencing, Genes & Development, vol.21, issue.20, pp.2558-2570, 2007.
DOI : 10.1101/gad.443107

R. Zhou, I. Hotta, A. Denli, P. Hong, and N. Perrimon, Comparative Analysis of Argonaute-Dependent Small RNA Pathways in Drosophila, Molecular Cell, vol.32, issue.4, pp.592-599, 2008.
DOI : 10.1016/j.molcel.2008.10.018

C. Carre, D. Szymczak, J. Pidoux, and C. Antoniewski, The Histone H3 Acetylase dGcn5 Is a Key Player in Drosophila melanogaster Metamorphosis, Molecular and Cellular Biology, vol.25, issue.18, pp.8228-8238, 2005.
DOI : 10.1128/MCB.25.18.8228-8238.2005

URL : https://hal.archives-ouvertes.fr/hal-00016384

J. Brennecke, D. Hipfner, A. Stark, R. Russell, and S. Cohen, bantam Encodes a Developmentally Regulated microRNA that Controls Cell Proliferation and Regulates the Proapoptotic Gene hid in Drosophila, Cell, vol.113, issue.1, pp.25-36, 2003.
DOI : 10.1016/S0092-8674(03)00231-9

H. Seitz, M. Ghildiyal, and P. Zamore, Argonaute Loading Improves the 5??? Precision of Both MicroRNAs and Their miRNA??? Strands in Flies, Current Biology, vol.18, issue.2, pp.147-151, 2008.
DOI : 10.1016/j.cub.2007.12.049

A. Jouneau, C. Ciaudo, O. Sismeiro, V. Brochard, and L. Jouneau, Naive and primed murine pluripotent stem cells have distinct miRNA expression profiles, RNA, vol.18, issue.2, pp.253-264, 2012.
DOI : 10.1261/rna.028878.111

URL : https://hal.archives-ouvertes.fr/hal-01001312

R. Gregory, K. Yan, G. Amuthan, T. Chendrimada, and B. Doratotaj, The Microprocessor complex mediates the genesis of microRNAs, Nature, vol.12, issue.7014, pp.235-240, 2004.
DOI : 10.1038/nature03120

M. Horwich, C. Li, C. Matranga, V. Vagin, and G. Farley, The Drosophila RNA Methyltransferase, DmHen1, Modifies Germline piRNAs and Single-Stranded siRNAs in RISC, Current Biology, vol.17, issue.14, pp.1265-1272, 2007.
DOI : 10.1016/j.cub.2007.06.030

A. Pelisson, E. Sarot, G. Payen-groschene, and A. Bucheton, A Novel Repeat-Associated Small Interfering RNA-Mediated Silencing Pathway Downregulates Complementary Sense gypsy Transcripts in Somatic Cells of the Drosophila Ovary, Journal of Virology, vol.81, issue.4, pp.1951-1960, 2007.
DOI : 10.1128/JVI.01980-06

K. Saito, Y. Sakaguchi, T. Suzuki, H. Siomi, and M. Siomi, Pimet, the Drosophila homolog of HEN1, mediates 2'-O-methylation of Piwi- interacting RNAs at their 3' ends, Genes & Development, vol.21, issue.13, pp.1603-1608, 2007.
DOI : 10.1101/gad.1563607

K. Nishida, K. Miyoshi, A. Ogino, T. Miyoshi, and H. Siomi, Roles of R2D2, a Cytoplasmic D2 Body Component, in the Endogenous siRNA Pathway in Drosophila, Molecular Cell, vol.49, issue.4, pp.680-691, 2013.
DOI : 10.1016/j.molcel.2012.12.024

Y. Chou, B. Tam, F. Linay, and E. Lai, Transgenic Inhibitors of RNA Interference in Drosophila, Fly, vol.1, issue.6, pp.311-316, 2007.
DOI : 10.4161/fly.5606

A. Kasinski and F. Slack, MicroRNAs en route to the clinic: progress in validating and targeting microRNAs for cancer therapy, Nature Reviews Cancer, vol.39, issue.12, pp.849-864, 2011.
DOI : 10.1038/nrc3166

C. Connelly, M. Thomas, and A. Deiters, High-Throughput Luciferase Reporter Assay for Small-Molecule Inhibitors of MicroRNA Function, Journal of Biomolecular Screening, vol.132, issue.23, pp.822-828, 2012.
DOI : 10.1177/108705719900400206

B. Davies and C. Arenz, A Homogenous Assay for Micro RNA Maturation, Angewandte Chemie International Edition, vol.37, issue.33, pp.5550-5552, 2006.
DOI : 10.1002/anie.200601332

B. Davies and C. Arenz, A fluorescence probe for assaying micro RNA maturation, Bioorganic & Medicinal Chemistry, vol.16, issue.1, pp.49-55, 2008.
DOI : 10.1016/j.bmc.2007.04.055

K. Gumireddy, D. Young, X. Xiong, J. Hogenesch, and Q. Huang, Small-Molecule Inhibitors of MicroRNA miR-21 Function, Angewandte Chemie International Edition, vol.32, issue.39, pp.7482-7484, 2008.
DOI : 10.1002/anie.200801555

D. Young, C. Connelly, C. Grohmann, and A. Deiters, Small Molecule Modifiers of MicroRNA miR-122 Function for the Treatment of Hepatitis C Virus Infection and Hepatocellular Carcinoma, Journal of the American Chemical Society, vol.132, issue.23, pp.7976-7981, 2010.
DOI : 10.1021/ja910275u

A. Deiters, Small Molecule Modifiers of the microRNA and RNA Interference Pathway, The AAPS Journal, vol.12, issue.1, pp.51-60, 2010.
DOI : 10.1208/s12248-009-9159-3

Y. Kim and V. Kim, Processing of intronic microRNAs, The EMBO Journal, vol.13, issue.3, pp.775-783, 2007.
DOI : 10.1038/sj.emboj.7601512

A. Chaturvedi, P. Green, and J. Carroll, K-modes Clustering, Journal of Classification, vol.18, issue.1, pp.35-56, 2001.
DOI : 10.1007/s00357-001-0004-3

Z. Huang, Extensions to the k-Means Algorithm for Clustering Large Data Sets with Categorical Values, Data Mining and Knowledge Discovery, vol.2, issue.3, pp.283-304, 1998.
DOI : 10.1023/A:1009769707641

P. Willett, Similarity and Clustering in Chemical Information Systems, 1987.