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Ki67-mediated chromatin accessibility impedes B-cell antigen-receptor gene rearrangement

GSE246986 Mus musculus Genome binding/occupancy profiling by high throughput sequencing 24 samples Submitted 2024/05/31 Platform GPL24247
Summary
B and T cells can recognise and respond to a vast array of foreign pathogens by virtue of the diverse antigen-receptor repertoire generated by gene rearrangement during development. Here, we show that deficiency in Ki67, a nuclear protein ubiquitously expressed throughout the cell cycle, impairs B-cell development at specific, early stages. We identified that Ki67 maintains global chromatin accessibility in lymphocyte progenitors at stages where antigen-receptor gene rearrangements occur and that gene rearrangement is less efficient in the absence of Ki67. That the defects in B cell development are caused by disrupted antigen-receptor gene rearrangement is shown by pre-rearranged antigen-receptor genes fully compensating for loss of Ki67. Collectively, these results identify a unique contribution from Ki67 to somatic antigen-receptor gene rearrangement.
Published in
Ki67 deficiency impedes chromatin accessibility and BCR gene rearrangement
Ding Z, Hagan M, Yan F et al. · The Journal of experimental medicine 2024 · PMID 38842525 · doi:10.1084/jem.20232160
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Direct links to NCBI, no account and no request form: the whole study as GSE246986_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 24 samples. Raw sequencing reads are also available from ENA.

Also filed as BioProject PRJNA1035491 and SRA study SRP470112. Searching any of these in the dataset finder brings you back here.

Study design
6 conditions, mostly with about 4 replicates each
WT Pre-pro-B ×4 Mki67-/- Pre-pro-B ×4 WT Pro-B ×4 Mki67-/- Pro-B ×4 WT Small pre-B ×4 Mki67-/- Small pre-B ×4

Supports a between-group comparison across 24 samples.

6 replicated groups read from 24 sample titles; they account for 24 of them. Check it against the sample list below before relying on it.

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