GEO series

Guanine- and cytosine-rich genes are actively transcribed at the nuclear Lmnb1 compartment

GSE246040 Mus musculus Genome binding/occupancy profiling by high throughput sequencing 6 samples Submitted 2025/10/23 Platform GPL19057

Summary

Chromatin organization in the mammalian cell nucleus plays a vital role in the regulation of gene expression. The lamina-associated domain at the inner nuclear membrane has been proposed to harbor heterochromatin, while the nuclear interior has been shown to contain most of the euchromatin. Here, we show that a sub-set of actively transcribing genes, marked by RNA Pol II pSer2, are associated with Lmnb1 at the inner nuclear envelop in mESCs and the number of genes proportionally increases upon in vitro differentiation of mESC to olfactory precursor cells. These nuclear periphery-associated actively transcribing genes primarily represent housekeeping genes, and their gene bodies are significantly enriched with guanine and cytosine compared to genes actively transcribed at the nuclear interior. We found the promoters of these gene’s to also be significantly enriched with guanine and to be predominantly regulated by zinc finger protein transcription factors. We provide evidence supporting the emerging notion that the Lmnb1 region is not solely transcriptionally silent.

Published in

A sub-set of guanine- and cytosine-rich genes are actively transcribed at the nuclear lamin B1 region

Balasooriya GI, Naik P, Wee TL et al. · Cellular and molecular life sciences : CMLS 2026 · PMID 41483028 · doi:10.1007/s00018-025-05976-3

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Direct links to NCBI, no account and no request form: the whole study as GSE246040_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 6 samples. Raw sequencing reads are also available from ENA.

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Also filed as BioProject PRJNA1031166 and SRA study SRP467971. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41483028) ↗

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