CpG Islands in vertebrate genomes, Journal of Molecular Biology, vol.196, issue.2, pp.261-282, 1987. ,
DOI : 10.1016/0022-2836(87)90689-9
Orphan CpG Islands Identify Numerous Conserved Promoters in the Mammalian Genome, PLoS Genetics, vol.25, issue.9, p.1001134, 2010. ,
DOI : 10.1371/journal.pgen.1001134.s010
URL : http://doi.org/10.1371/journal.pgen.1001134
Cell type-specific DNA methylation at intragenic CpG islands in the immune system, Genome Research, vol.21, issue.7, 2011. ,
DOI : 10.1101/gr.118703.110
Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood, Genome Biology, vol.13, issue.6, p.43, 2012. ,
DOI : 10.1186/1471-2105-9-559
Genome-wide survey reveals dynamic widespread tissue-specific changes in DNA methylation during development, BMC Genomics, vol.73, issue.1, p.231, 2011. ,
DOI : 10.1016/0092-8674(93)90160-R
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3118215
Conserved role of intragenic DNA methylation in regulating alternative promoters, Nature, vol.45, issue.7303, pp.253-257, 2010. ,
DOI : 10.1038/nature09165
The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores, Nature Genetics, vol.57, issue.2, pp.178-186, 2009. ,
DOI : 10.1093/bioinformatics/btl567
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2729128
Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts, Nature Genetics, vol.4, issue.12, pp.1350-1353, 2009. ,
DOI : 10.1038/ng.471
Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer, Clinical Cancer Research, vol.17, issue.6, pp.1287-1296, 2011. ,
DOI : 10.1158/1078-0432.CCR-10-2017
Comparative methylome analysis of benign and malignant peripheral nerve sheath tumors, Genome Research, vol.21, issue.4, pp.515-524, 2011. ,
DOI : 10.1101/gr.109678.110
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3065699
Comprehensive methylome map of lineage commitment from haematopoietic progenitors, Nature, vol.107, issue.7313, pp.338-342, 2010. ,
DOI : 10.1101/sqb.2008.73.031
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2956609
Adaptation of the CHARM DNA methylation platform for the rat genome reveals novel brain region-specific differences, Epigenetics, vol.12, issue.11, pp.1378-1390, 2011. ,
DOI : 10.1093/biostatistics/kxq055
CpG island shore methylation regulates caveolin-1 expression in breast cancer, Oncogene, vol.131, issue.38, pp.4519-4528, 2012. ,
DOI : 10.1007/s10549-011-1751-4
URL : http://www.nature.com/onc/journal/v32/n38/pdf/onc2012474a.pdf
Genetic Control of Individual Differences in Gene-Specific Methylation in Human Brain, The American Journal of Human Genetics, vol.86, issue.3, pp.411-419, 2010. ,
DOI : 10.1016/j.ajhg.2010.02.005
Cell-Specific DNA Methylation Patterns of Retina-Specific Genes, PLoS ONE, vol.90, issue.3, p.32602, 2012. ,
DOI : 10.1371/journal.pone.0032602.s005
URL : http://doi.org/10.1371/journal.pone.0032602
Tissue-specific expression of IL-15RA alternative splicing transcripts and its regulation by DNA methylation. Eur, Cytokine Netw, vol.21, pp.308-318, 2010. ,
A novel methyl-binding domain protein enrichment method for identifying genome-wide tissue-specific DNA methylation from nanogram DNA samples, Epigenetics & Chromatin, vol.6, issue.1, p.17, 2013. ,
DOI : 10.1101/gr.080721.108
URL : https://hal.archives-ouvertes.fr/hal-01549207
Human Epigenome Data Reveal Increased CpG Methylation in Alternatively Spliced Sites and Putative Exonic Splicing Enhancers, DNA and Cell Biology, vol.30, issue.5, pp.267-275, 2011. ,
DOI : 10.1089/dna.2010.1094
Nucleosomes are well positioned in exons and carry characteristic histone modifications, Genome Research, vol.19, issue.10, pp.1732-1741, 2009. ,
DOI : 10.1101/gr.092353.109
URL : http://genome.cshlp.org/content/19/10/1732.full.pdf
Relationship between nucleosome positioning and DNA methylation, Nature, vol.5, issue.7304, pp.388-392, 2010. ,
DOI : 10.1017/S0033583501003699
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2964354
Nucleosome deposition and DNA methylation at coding region boundaries DNAmethylation effect on co-transcriptional splicing is dependent on GC-architecture of the exon-intron structure, Genome Biol. Genome Res, vol.10, issue.23, pp.789-799, 2009. ,
Differential chromatin marking of introns and expressed exons by H3K36me3, Nature Genetics, vol.7, issue.3, pp.376-381, 2009. ,
DOI : 10.1186/gb-2007-8-8-r178
Chromatin organization marks exon-intron structure, Nature Structural & Molecular Biology, vol.448, issue.9, pp.990-995, 2009. ,
DOI : 10.1128/MCB.10.1.84
Epigenetic features are significantly associated with alternative splicing, BMC Genomics, vol.13, issue.1, p.123, 2012. ,
DOI : 10.1186/1471-2164-13-123
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3362759
CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing, Nature, vol.17, issue.7371, pp.74-79, 2011. ,
DOI : 10.1093/bioinformatics/17.6.566
CTCF mediates methylation-sensitive enhancer-blocking activity at the H19/Igf2 locus, Nature, vol.405, pp.486-489, 2000. ,
Comprehensive high-throughput arrays for relative methylation (CHARM), Genome Research, vol.18, issue.5, pp.780-790, 2008. ,
DOI : 10.1101/gr.7301508
Dynamic usage of alternative splicing exons during mouse retina development, Nucleic Acids Research, vol.39, issue.18, pp.7920-7930, 2011. ,
DOI : 10.1093/nar/gkr545
URL : https://academic.oup.com/nar/article-pdf/39/18/7920/16778703/gkr545.pdf
Accurate genome-scale percentage DNA methylation estimates from microarray data, Biostatistics, vol.12, issue.2, pp.197-210, 2011. ,
DOI : 10.1093/biostatistics/kxq055
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3062148
The UCSC Genome Browser database: extensions and updates 2013, Nucleic Acids Research, vol.41, issue.D1, pp.64-69, 2013. ,
DOI : 10.1093/nar/gks1048
URL : https://academic.oup.com/nar/article-pdf/41/D1/D64/3594946/gks1048.pdf
A new bioinformatics analysis tools framework at EMBL-EBI, Nucleic Acids Research, vol.38, issue.Web Server, pp.695-699, 2010. ,
DOI : 10.1093/nar/gkq313
URL : https://academic.oup.com/nar/article-pdf/38/suppl_2/W695/3832907/gkq313.pdf
Use of Laser Capture Microdissection for Analysis of Retinal mRNA/miRNA Expression and DNA Methylation, Methods Mol. Biol, vol.884, pp.289-304, 2012. ,
DOI : 10.1007/978-1-61779-848-1_21
Compact, universal DNA microarrays to comprehensively determine transcription-factor binding site specificities, Nature Biotechnology, vol.77, issue.11, pp.1429-1435, 2006. ,
DOI : 10.1128/MCB.9.7.2944
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4419707
TRANSFAC(R): transcriptional regulation, from patterns to profiles, Nucleic Acids Research, vol.31, issue.1, pp.374-378, 2003. ,
DOI : 10.1093/nar/gkg108
Quantifying similarity between motifs, Genome Biology, vol.8, issue.2, p.24, 2007. ,
DOI : 10.1186/gb-2007-8-2-r24
URL : https://genomebiology.biomedcentral.com/track/pdf/10.1186/gb-2007-8-2-r24?site=genomebiology.biomedcentral.com
WT1 interacts with the splicing factor U2AF65 in an isoform-dependent manner and can be incorporated into spliceosomes, Genes & Development, vol.12, issue.20, pp.3217-3225, 1998. ,
DOI : 10.1101/gad.12.20.3217
Regulation of transcription of the RNA splicing factor hSlu7 by Elk-1 and Sp1 affects alternative splicing, RNA, vol.13, issue.11, 1988. ,
DOI : 10.1261/rna.492907
Integrative-analysis-of-tissue-specific by BIUS Jussieu user on, 2017. ,
Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation, Science, vol.107, issue.1-3, pp.916-919, 2010. ,
DOI : 10.1023/A:1003990818251
Epigenetic control of alternative mRNA processing at the imprinted Herc3/Nap1l5 locus, Nucleic Acids Research, vol.40, issue.18, pp.8917-8926, 2012. ,
DOI : 10.1093/nar/gks654
Genome-wide association between DNA methylation and alternative splicing in an invertebrate, BMC Genomics, vol.13, issue.1, p.480, 2012. ,
DOI : 10.1371/journal.pcbi.1000598
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3526459
DNA hypermethylation of alternatively spliced and repeat sequences in humans, Molecular Genetics and Genomics, vol.13, issue.1, pp.631-642, 2012. ,
DOI : 10.1186/1471-2164-13-123
High Resolution Methylome Map of Rat Indicates Role of Intragenic DNA Methylation in Identification of Coding Region, PLoS ONE, vol.6, issue.2, p.31621, 2012. ,
DOI : 10.1371/journal.pone.0031621.s018
Co-transcriptional splicing of constitutive and alternative exons, RNA, vol.15, issue.10, pp.1896-1908, 2009. ,
DOI : 10.1261/rna.1714509
URL : http://rnajournal.cshlp.org/content/15/10/1896.full.pdf
Dynamic Readers for 5-(Hydroxy)Methylcytosine and Its Oxidized Derivatives, Cell, vol.152, issue.5, pp.1146-1159, 2013. ,
DOI : 10.1016/j.cell.2013.02.004
URL : http://doi.org/10.1016/j.cell.2013.02.004