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Series GSE72432 Query DataSets for GSE72432
Status Public on Jul 07, 2022
Title Brain neuronal cell nuclei with exceptionally high levels of hydroxymethylcytosine
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary We recently reported that a significant subpopulation of adult mouse brain cellular nuclei (NeuN-High) have highly decondensed chromatin characteristic of multipotent cells types (Yu et al., DNEU, 2015). Herein we show that NeuN-High nuclei also have significantly higher levels of 5ยด-hydroxymethylcytosine (5hmC), a rate limiting intermediate in the turnover of modified cytosine. TET-assisted bisulfite sequencing demonstrated that 5hmC levels in NeuN-High nuclei spiked rapidly from 20% to nearly 40% of CG dinucleotides at the start of gene regions for various classes of the most highly transcribed neuron-specific genes, but were variably distributed among different functional gene categories and in well-defined gene regions. NeuN-Low neuronal and non-nueronal neuronal nuclei had significantly lower levels of 5hmC for all classes of expressed genes. In summary, these data support the view that an elevated turnover rate for chromatin modifications may potentiate the cellular memory of the most active subclasses of neurons.
Overall design TAB-seq data was collected from genomic DNA isolated from NeuN-High, NeuN-Low and NeuN-Neg Mus musculus brain cell nuclei.
Contributor(s) Schmitz RJ
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Submission date Aug 27, 2015
Last update date Jul 07, 2022
Contact name Robert J Schmitz
Organization name University of Georgia
Department Genetics
Street address B416 Davison Life Sciences
City Athens
State/province GA
ZIP/Postal code 30602
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (3)
GSM1862588 NeuN-High mouse brain nuclei
GSM1862589 NeuN-Low mouse brain nuclei
GSM1862590 NeuN_Neg mouse brain nuclei
BioProject PRJNA294053
SRA SRP062899

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Supplementary file Size Download File type/resource
GSE72432_RAW.tar 2.4 Gb (http)(custom) TAR (of TSV)
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Raw data are available in SRA
Processed data provided as supplementary file

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