Transcriptomics

Dataset Information

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MEF2D binding sites in rat hippocampal neurons


ABSTRACT: We analyzed the binding profiles of MEF2D, a member of MEF2 family transcription factors, in rat hippocampal neurons. Keywords: ChIP-chip We used custom-designed rat genome tiling array manufactured by Nimblegen Systems, Inc . This array contains probes that represent the following rat genomic regions: 182 genes identified by mRNA profiling experiments, 86 genes whose expression was decreased by both KCl-mediated depolarization and MEF2 RNAi, and 40 control genes whose expression was not altered by MEF2 RNAi or MEF2-VP16-ER. The array not only covers the entire gene regions but also contains probes that correspond to the 40 kb 5′and 3′ to each gene. Repeatmasking was conducted by Nimblegen to ensure that repetitive elements were not tiled on the microarray. Probe length and spacing between the probes were 50-75mer and 50 bp, respectively.

ORGANISM(S): Rattus norvegicus  

SUBMITTER: Tae-Kyung Kim  

PROVIDER: E-GEOD-13551 | ArrayExpress | 2010-05-06

SECONDARY ACCESSION(S): GSE13551PRJNA110733

REPOSITORIES: GEO, ArrayExpress

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Publications

Genome-wide analysis of MEF2 transcriptional program reveals synaptic target genes and neuronal activity-dependent polyadenylation site selection.

Flavell Steven W SW   Kim Tae-Kyung TK   Gray Jesse M JM   Harmin David A DA   Hemberg Martin M   Hong Elizabeth J EJ   Markenscoff-Papadimitriou Eirene E   Bear Daniel M DM   Greenberg Michael E ME  

Neuron 20081201 6


Although many transcription factors are known to control important aspects of neural development, the genome-wide programs that are directly regulated by these factors are not known. We have characterized the genetic program that is activated by MEF2, a key regulator of activity-dependent synapse development. These MEF2 target genes have diverse functions at synapses, revealing a broad role for MEF2 in synapse development. Several of the MEF2 targets are mutated in human neurological disorders i  ...[more]

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