Simon J. Elsässer

Sorting S-phase cells by Cyclin A2 rather than DNA content exposes a uniform genome-wide delay after CDC7 inhibition and a broad replication timing advance in RIF1 knockout.

This paper develops dual-color expansion microscopy using non-canonical amino acid labeling to achieve high-resolution imaging of membrane proteins in HEK 293T cells.

The paper uses pooled overexpression screens to identify PIPPI, a novel microprotein involved in the ER stress response, by screening sORFs for cytoprotective effects against 6-thioguanine.

This study uses G4 scCUT&Tag to profile G-quadruplexes in mouse brain cells, showing lineage-specific G4s and enabling integrative analysis with scRNA-Seq data.

The paper performs a CRISPR/Cas9 screen of sORFs to identify microproteins involved in cancer cell growth, finding several candidates with functional roles and localization data.

This study identifies BAZ2 chromatin remodelers as suppressors of G4 DNA structures and shows that their depletion increases G4 formation and genomic instability.

This study shows that PRC2 restricts naive pluripotent stem cells from differentiating into trophectoderm by maintaining bivalent promoters and H3K27me3 methylation.

minute is a computational workflow for processing multiplexed ChIP-seq data to generate normalized, scaled bigWig files for quantitative comparative analysis.

This study uses CUT&Tag to map G-quadruplex structures in mammalian cells, revealing their genomic distribution and relationship with transcription and R loops.

The paper describes engineering hiPSCs with an expanded genetic code to enable site-specific incorporation of non-canonical amino acids in brain organoids.

This study uses TT-seq to analyze RNA synthesis dynamics in three mouse pluripotent states, finding reduced RNA synthesis and elongation velocity in 2i and mTORi states.

The paper shows that H3.3 incorporation and histone turnover occur in interstitial heterochromatin despite DNA inaccessibility and repressive marks, and that H3.3 is needed to maintain minimal DNA accessibility in this state.

The paper uses MINUTE-ChIP to analyze H3K27me3 and H3K4me3 in mouse ESCs under 2i and serum conditions, finding hypermethylation of H3K27me3 and loss of H3K4me3 at bivalent promoters.

The paper identifies a new pyrrolysyl tRNA/aminoacyl-tRNA synthetase pair from M. alvus Mx1201 that is orthogonal to Mma PylRS/PylT in mammalian cells, enabling site-specific ncAA incorporation via distinct stop codons.