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A draft map of cis-regulatory sequences in the mouse genome [ChIP-Seq]

GSE29218 Mus musculus Genome binding/occupancy profiling by high throughput sequencing 122 samples Submitted 2012/07/01 Platform GPL11002Platform GPL13112Platform GPL9250
Summary
As the most widely used mammalian model organism, mice play a critical role in biomedical research for mechanistic study of human development and diseases. Today, functional sequences in the mouse genome are still poorly annotated a decade after its initial sequencing. We report here a map of nearly 300,000 cis-regulatory sequences in the mouse genome, representing active promoters, enhancers and CTCF binding sites in a diverse set of 19 tissues and cell types. This map provides functional annotation to nearly 11% of the genome, and over 70% of conserved, non-coding sequences. We define tissue-specific enhancers and identify potential transcription factors regulating gene expression in each tissue or cell type. Finally, we demonstrate that cis-regulatory sequences are organized into domains of coordinately regulated enhancers and promoters. Our results provide a valuable resource for the annotation of functional elements in the mammalian genome, and study of regulatory mechanisms for tissue-specific gene expression.
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Direct links to NCBI, no account and no request form: the whole study as GSE29218_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 122 samples. Raw sequencing reads are also available from ENA.

Also filed as BioProject PRJNA142963 and SRA study SRP006786. Searching any of these in the dataset finder brings you back here.

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