D. Rines, D. R. Sorger, P. K. Danuser, and G. , Automatic fluorescent tag detection in 3D with super-resolution: application to the analysis of chromosome movement, J Microsc, vol.208, pp.49-64, 2002.

R. Henriques, QuickPALM: 3D real-time photoactivation nanoscopy image processing in ImageJ, Nature Methods, vol.47, issue.5, pp.339-340, 2010.
DOI : 10.1038/nmeth0510-339

B. Zhang, J. Zerubia, and J. Olivo-marin, Gaussian approximations of fluorescence microscope point-spread function models, Applied Optics, vol.46, issue.10, pp.1819-1829, 2007.
DOI : 10.1364/AO.46.001819

URL : https://hal.archives-ouvertes.fr/pasteur-00163734

A. Raj, C. S. Peskin, D. Tranchina, D. Y. Vargas, and S. Tyagi, Stochastic mRNA Synthesis in Mammalian Cells, PLoS Biology, vol.280, issue.10, p.309, 2006.
DOI : 10.1371/journal.pbio.0040309.sv002

A. Raj, P. Van-den-bogaard, S. A. Rifkin, A. Van-oudenaarden, and S. Tyagi, Imaging individual mRNA molecules using multiple singly labeled probes, Nature Methods, vol.139, issue.10, pp.877-879, 2008.
DOI : 10.1038/nmeth.1253

URL : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3126653/pdf

R. Parthasarathy, Rapid, accurate particle tracking by calculation of radial symmetry centers, Nature Methods, vol.453, issue.7, pp.724-726, 2012.
DOI : 10.1038/nature06931

R. J. Ober, S. Ram, and E. S. Ward, Localization Accuracy in Single-Molecule Microscopy, Biophysical Journal, vol.86, issue.2, pp.1185-1200, 2004.
DOI : 10.1016/S0006-3495(04)74193-4

D. Zenklusen, D. R. Larson, and R. H. Singer, Single-RNA counting reveals alternative modes of gene expression in yeast, Nature Structural & Molecular Biology, vol.259, issue.12, pp.1263-1271, 2008.
DOI : 10.1038/70487

A. M. Femino, F. S. Fay, K. Fogarty, and R. H. Singer, Visualization of Single RNA Transcripts in Situ, Science, vol.280, issue.5363, pp.585-590, 1998.
DOI : 10.1126/science.280.5363.585

S. Boireau, The transcriptional cycle of HIV-1 in real-time and live cells, The Journal of Cell Biology, vol.432, issue.2, pp.291-304, 2007.
DOI : 10.1016/j.molcel.2005.11.002

C. J. Decker and R. Parker, P-Bodies and Stress Granules: Possible Roles in the Control of Translation and mRNA Degradation, Cold Spring Harbor Perspectives in Biology, vol.4, issue.9, p.12286, 2012.
DOI : 10.1101/cshperspect.a012286

W. G. Müller, D. Walker, G. L. Hager, and J. G. Mcnally, Large-scale chromatin decondensation and recondensation regulated by transcription from a natural promoter, The Journal of Cell Biology, vol.67, issue.1, pp.33-48, 2001.
DOI : 10.1146/annurev.biochem.67.1.545

X. Darzacq, In vivo dynamics of RNA polymerase II transcription, Nature Structural & Molecular Biology, vol.6, issue.9, pp.796-806, 2007.
DOI : 10.1109/TAC.1974.1100705

J. B. Lawrence, R. H. Singer, and L. M. Marselle, Highly localized tracks of specific transcripts within interphase nuclei visualized by in situ hybridization, Cell, vol.57, issue.3, pp.493-502, 1989.
DOI : 10.1016/0092-8674(89)90924-0

C. Bellemer, Microprocessor dynamics and interactions at endogenous imprinted C19MC microRNA genes, Journal of Cell Science, vol.125, issue.11, pp.2709-2720, 2012.
DOI : 10.1242/jcs.100354

URL : https://hal.archives-ouvertes.fr/hal-00688362

P. Vitali, H. Royo, V. Marty, M. Bortolin-cavaillé, and J. Cavaillé, Long nuclear-retained non-coding RNAs and allele-specific higher-order chromatin organization at imprinted snoRNA gene arrays, Journal of Cell Science, vol.123, issue.1, pp.70-83, 2010.
DOI : 10.1242/jcs.054957

URL : https://hal.archives-ouvertes.fr/hal-00611871

H. Royo, Bsr, a Nuclear-retained RNA with Monoallelic Expression, Molecular Biology of the Cell, vol.18, issue.8, pp.2817-2827, 2007.
DOI : 10.1091/mbc.E06-10-0920

URL : https://hal.archives-ouvertes.fr/hal-00309029

E. Wegel and P. Shaw, Gene activation and deactivation related changes in the three-dimensional structure of chromatin, Chromosoma, vol.16, issue.Pt 9, pp.331-337, 2005.
DOI : 10.1101/SQB.1953.018.01.020

A. S. Belmont and A. Straight, In vivo visualization of chromosomes using lac operator-repressor binding, Trends in Cell Biology, vol.8, issue.3, pp.121-124, 1998.
DOI : 10.1016/S0962-8924(97)01211-7

H. Tilgner, Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs, Genome Research, vol.22, issue.9, pp.1616-1625, 2012.
DOI : 10.1101/gr.134445.111

U. Schmidt, Real-time imaging of cotranscriptional splicing reveals a kinetic model that reduces noise: implications for alternative splicing regulation, The Journal of Cell Biology, vol.8, issue.5, pp.819-829, 2011.
DOI : 10.1093/emboj/20.10.2564

I. Golding, J. Paulsson, S. M. Zawilski, and E. C. Cox, Real-Time Kinetics of Gene Activity in Individual Bacteria, Cell, vol.123, issue.6, pp.1025-1036, 2005.
DOI : 10.1016/j.cell.2005.09.031

C. Fraefel, Spatial and Temporal Organization of Adeno-Associated Virus DNA Replication in Live Cells, Journal of Virology, vol.78, issue.1, pp.389-398, 2004.
DOI : 10.1128/JVI.78.1.389-398.2004

T. Tsukamoto, Visualization of gene activity in living cells, Nat. Cell Biol, vol.2, pp.871-878, 2000.

X. Darzacq, Stepwise RNP assembly at the site of H/ACA RNA transcription in human cells, The Journal of Cell Biology, vol.11, issue.2, pp.207-218, 2006.
DOI : 10.1091/mbc.11.2.567

URL : https://hal.archives-ouvertes.fr/hal-00090308

D. Fusco, Single mRNA Molecules Demonstrate Probabilistic Movement in Living Mammalian Cells, Current Biology, vol.13, issue.2, pp.161-167, 2003.
DOI : 10.1016/S0960-9822(02)01436-7

URL : https://doi.org/10.1016/s0960-9822(02)01436-7