CAGE-defined promoter regions of the genes implicated in Rett Syndrome
Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
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CAGE-defined promoter regions of the genes implicated in Rett Syndrome. / Vitezic, Morana; Bertin, Nicolas; Andersson, Robin; Lipovich, Leonard; Kawaji, Hideya; Lassmann, Timo; Sandelin, Albin Gustav; Heutink, Peter; Goldowitz, Dan; Ha, Thomas; Zhang, Peter; Patrizi, Annarita; Fagiolini, Michela; Forrest, Alistair Rr; Carninci, Piero; Saxena, Alka.
I: BMC Genomics, Bind 15, 1177, 2014.Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
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TY - JOUR
T1 - CAGE-defined promoter regions of the genes implicated in Rett Syndrome
AU - Vitezic, Morana
AU - Bertin, Nicolas
AU - Andersson, Robin
AU - Lipovich, Leonard
AU - Kawaji, Hideya
AU - Lassmann, Timo
AU - Sandelin, Albin Gustav
AU - Heutink, Peter
AU - Goldowitz, Dan
AU - Ha, Thomas
AU - Zhang, Peter
AU - Patrizi, Annarita
AU - Fagiolini, Michela
AU - Forrest, Alistair Rr
AU - Carninci, Piero
AU - Saxena, Alka
PY - 2014
Y1 - 2014
N2 - BACKGROUND: Mutations in three functionally diverse genes cause Rett Syndrome. Although the functions of Forkhead box G1 (FOXG1), Methyl CpG binding protein 2 (MECP2) and Cyclin-dependent kinase-like 5 (CDKL5) have been studied individually, not much is known about their relation to each other with respect to expression levels and regulatory regions. Here we analyzed data from hundreds of mouse and human samples included in the FANTOM5 project, to identify transcript initiation sites, expression levels, expression correlations and regulatory regions of the three genes RESULTS: Our investigations reveal the predominantly used transcription start sites (TSSs) for each gene including novel transcription start sites for FOXG1. We show that FOXG1 expression is poorly correlated with the expression of MECP2 and CDKL5. We identify promoter shapes for each TSS, the predicted location of enhancers for each gene and the common transcription factors likely to regulate the three genes. Our data imply Polycomb Repressive Complex 2 (PRC2) mediated silencing of Foxg1 in cerebellum CONCLUSIONS: Our analyses provide a comprehensive picture of the regulatory regions of the three genes involved in Rett Syndrome.
AB - BACKGROUND: Mutations in three functionally diverse genes cause Rett Syndrome. Although the functions of Forkhead box G1 (FOXG1), Methyl CpG binding protein 2 (MECP2) and Cyclin-dependent kinase-like 5 (CDKL5) have been studied individually, not much is known about their relation to each other with respect to expression levels and regulatory regions. Here we analyzed data from hundreds of mouse and human samples included in the FANTOM5 project, to identify transcript initiation sites, expression levels, expression correlations and regulatory regions of the three genes RESULTS: Our investigations reveal the predominantly used transcription start sites (TSSs) for each gene including novel transcription start sites for FOXG1. We show that FOXG1 expression is poorly correlated with the expression of MECP2 and CDKL5. We identify promoter shapes for each TSS, the predicted location of enhancers for each gene and the common transcription factors likely to regulate the three genes. Our data imply Polycomb Repressive Complex 2 (PRC2) mediated silencing of Foxg1 in cerebellum CONCLUSIONS: Our analyses provide a comprehensive picture of the regulatory regions of the three genes involved in Rett Syndrome.
U2 - 10.1186/1471-2164-15-1177
DO - 10.1186/1471-2164-15-1177
M3 - Journal article
C2 - 25539566
VL - 15
JO - BMC Genomics
JF - BMC Genomics
SN - 1471-2164
M1 - 1177
ER -
ID: 132466718