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Niek Wit

@niekwit.bsky.social
51 followers 58 following 4 posts

Bioinformatician @ University of Cambridge github.com/niekwit

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Reposted by Niek Wit
Jelle van den Ameele @jellevda.bsky.social · 03/04/2026
Really pleased to see this out @natsmb.nature.com: www.nature.com/articles/s41.... MitoPerturb-Seq combines #singlecell #CRISPR screening with whole-cell Multiome, to identify nuclear modifiers of mtDNA dynamics. @mitocamb.bsky.social @mrc-mbu.bsky.social @prudentlab.bsky.social and Stephen Burr
nature.com
MitoPerturb-Seq identifies gene-specific single-cell responses to mitochondrial DNA depletion and heteroplasmy - Nature Structural & Molecular Biology
Burr and Auckland et. al develop MitoPerturb-Seq, which combines single-cell screening with multiomics to link nuclear genes to mitochondrial DNA (mtDNA) dynamics. They unveil core regulators of mtDNA...
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Niek Wit @niekwit.bsky.social · 14/03/2026
www.nature.com/articles/s41...
nature.com
VHL synthetic lethality screens uncover CBF-β as a negative regulator of STING - Nature Communications
Biallelic inactivation of the VHL tumour suppressor gene is a hallmark of Clear cell renal cell carcinoma (ccRCC). Here the authors perform genome-wide CRISPR/Cas9 screening to identify that loss of C...
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Reposted by Niek Wit
Meng Wang @drmengwang.bsky.social · 21/08/2025
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.
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Niek Wit @niekwit.bsky.social · 29/10/2025
link.springer.com/article/10.1...
link.springer.com
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...
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Niek Wit @niekwit.bsky.social · 29/10/2025
www.cell.com/cell-stem-ce...
cell.com
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...
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Niek Wit @niekwit.bsky.social · 29/10/2025
www.nature.com/articles/s41...
nature.com
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...
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Reposted by Niek Wit
James Nathan @jamesnathanlab.bsky.social · 15/07/2025
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.
rdcu.be
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...
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Reposted by Niek Wit
James Nathan @jamesnathanlab.bsky.social · 18/09/2025
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.
science.org
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.
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Reposted by Niek Wit
Emma Rawlins @labrawlins.bsky.social · 11/10/2025
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...
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Reposted by Niek Wit
James Nathan @jamesnathanlab.bsky.social · 15/10/2025
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
rdcu.be
Mapping SET1B chromatin interactions with DamID using DamMapper, a comprehensive Snakemake workflow
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