Niek Wit

New publication from our lab! It was really fun writing this review @jcb.org with my postdoc Dr. Chris Mellor and graduate student Elisabeth Larson. We explore how folate deficiency trigger DNA damage that disrupt genome stability.

Mapping SET1B chromatin interactions with DamID using DamMapper, a comprehensive Snakemake workflow - BMC Genomics DNA adenine methyltransferase identification followed by sequencing (DamID-seq) is a powerful method used to map genome-wide chromatin-protein interactions. However, the bioinformatic analysis of DamI...

link.springer.com/article/10.1...

Hypoxia promotes airway differentiation in the human lung epithelium Dong and colleagues uncover low oxygen-directed differentiation of human lung progenitors to airway rather than alveolar fate and show how the process is controlled by hypoxia-inducible factors. Hypox...

www.cell.com/cell-stem-ce...

Hypoxia induces histone clipping and H3K4me3 loss in neutrophil progenitors resulting in long-term impairment of neutrophil immunity - Nature Immunology Walmsley and colleagues report that systemic hypoxia induces persistent loss of histone H3K4me3 marks and epigenetic reprogramming in neutrophil progenitors, resulting in long-term impairment of subse...

www.nature.com/articles/s41...

Lipoyl deglutarylation by ABHD11 regulates mitochondrial and T cell metabolism Nature Chemical Biology - Glutarate rewires cell metabolism through conjugation to proteins or fatty acids, but how glutarylation is regulated is unclear. ABHD11 was identified as a...

Delighted to share our latest work on ABHD11 as a novel deglutarylating enzyme, and its role in T cell metabolism @natchembio.nature.com rdcu.be/ewiYZ. Many congratulations to co-first authors Guine Grice, Eleanor Minogue and @hudsonwilco.bsky.social! Great team effort with Randall Johnson's lab.

Mapping the genetic landscape of iron metabolism uncovers the SETD2 methyltransferase as a modulator of iron flux Genetic screens using endogenous reporters map key modulators of cellular iron, including the transcriptional regulator SETD2.

Happy to share latest work from the lab. Led by talented first author @awmartinelli.bsky.social. Mapping the genetic landscape of iron metabolism uncovers the SETD2 methyltransferase as a modulator of iron flux | Science Advances www.science.org/doi/10.1126/... Congratulations to all the team.

Delighted that Ziqi Dong's PhD paper is out for all to read! Hypoxia is fundamental to normal development, and fascinating! Thanks to all of our co-authors including @jamesnathanlab.bsky.social @jellevda.bsky.social authors.elsevier.com/sd/article/S...

Excited to share our first bioinformatics contribution! 🎉 Led by Niek Wit in collaboration with the van den Ameele lab @jellevda.bsky.social , we developed DamMapper damid-seq.readthedocs.io/en/latest/, a workflow for DamID-seq analysis, to map SET1B and HIF-1 chromatin occupancy. rdcu.be/eK2TS