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Leif S. Ludwig

@leifludwig.bsky.social

Emmy Noether Research Group leader at Berlin Institute of Health at Charité and Berlin Institute for Medical Systems Biology (MDC)

11 Posts261 Follower263 Folgt
Lars Velten@larsplus.bsky.social · 3w ago

@juruehle.bsky.social's PhD work is now out in Genome Biology 📚🧬 : Lentiviral single-cell MPRA of synthetic enhancers reveals motif affinity-based encoding of cell state specificity link.springer.com/article/10.1186/s13059-026-04186-9 Julia achieved three cool things with this work...🧵

Lentiviral single-cell MPRA of synthetic enhancers reveals motif affinity-based encoding of cell state specificity - Genome Biology

Background Cell state-specific gene expression programs emerge from the interplay between cis-regulatory elements (CREs), such as enhancers, and transcription factors (TFs). Massively parallel reporte...

link.springer.com

Nature Cell Biology@natcellbio.nature.com · last mo.

☕Single-cell transplantations of long-term HSCs, in-depth phenotyping and mathematical modeling identify reconstitution kinetics as a unifying metric of HSC potency and extrinsic regulation as a driver of lineage bias. @simonhaas.bsky.social @milsommick.bsky.social www.nature.com/articles/s41...

A kinetics-based model of haematopoiesis reveals extrinsic regulation of skewed lineage output from stem cells - Nature Cell Biology

Single-cell transplantations of long-term haematopoietic stem cells (HSCs), in-depth phenotyping and mathematical modelling identify reconstitution kinetics as a unifying metric of HSC potency and ext...

nature.com

Sinem Saka@sinemsaka.bsky.social · 2mo ago

If you’ve built DNA-barcoded antibody panels, you know the pain: every barcode means another conjugation. In our new preprint we introduce UnO, which transforms antibody conjugation problem into a universal barcode conversion workflow, enabling rapid panel generation. www.biorxiv.org/content/10.6...

Universal oligo adapters for high-efficiency DNA-barcoded antibody panel generation

DNA-barcoded antibodies are central to a broad range of spatial and dissociative assays and applications, including multiplexed imaging, single-cell profiling, and proximity detection. Direct modifica...

biorxiv.org

Payam Gammage@mito-oncogene.bsky.social · 2mo ago

🚨Excited to announce a new preprint from our lab, where we describe an ancient metabolic axis that controls mitochondrial genome copy number; a mechanism we uncovered in human cells that stretches through evolution to control mtDNA in flies, yeast and even plants!

biorxiv.org

Samuel A. Myers' lab@samyers-lab.bsky.social · 3mo ago

PrEditR takes mass spectrometry–based phosphoproteomic data outputs (and other PTMs) and designs sgRNA sequences to introduce site-specific amino acid substitutions in endogenous genes for functional evaluation using CRISPR-mediated base editing. Try it and let us know what you think.

bioRxivpreprint@biorxivpreprint.bsky.social · 3mo ago

PrEditR: A protein-centric platform for CRISPR-mediated base editor sgRNA design https://www.biorxiv.org/content/10.64898/2026.05.15.725600v1

Jelle van den Ameele@jellevda.bsky.social · 3mo ago

Visualising heteroplasmic mitochondrial DNA variants in situ? Now out as #mtDNA-smFISH in @cp-devcell.bsky.social! We find purifying selection against pathogenic mtDNA variants through genetic bottlenecks in the germline and the developing brain. www.cell.com/developmenta...

Single-molecule mitochondrial DNA imaging reveals heteroplasmy dynamics shaped by developmental bottlenecks and selection in vivo

Chandrasegaram et al. directly visualize mitochondrial DNA inside intact cells and tissues and reveal how genetic cell-to-cell variability arises during development. They show that somatic bottlenecks...

cell.com

@adamjrubin.bsky.social · 3mo ago

Excited to share our paper out today in @science.org! We directed high-content, single-cell genetic screens to ask how a disordered adapter protein orchestrates the complex process of T cell activation. (1/4) www.science.org/doi/10.1126/...

Disordered protein LAT encodes relative levels of signaling pathways in T cell activation

The disordered adapter protein linker for activation of T cells (LAT) propagates T cell receptor signaling. To interrogate how LAT coordinates multiple downstream pathways, we developed a single-cell ...

science.org

Jelle van den Ameele@jellevda.bsky.social · 4mo ago

Wonderful and honoured to write a perspective with @prudentlab.bsky.social @mrc-mbu.bsky.social on such an intriguing and cool observation of beautiful mitochondrial biology! Amazing work on how pearling allows mitochondrial genome organisation by @jclandoni.bsky.social @sulianamanley.bsky.social!

Juan C. Landoni@jclandoni.bsky.social · 4mo ago

Check out the fantastic perspective by @jellevda.bsky.social & @prudentlab.bsky.social on our #pearling work, out in the same @science.org issue! www.science.org/doi/10.1126/...

Jelle van den Ameele@jellevda.bsky.social · 4mo ago

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

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...

nature.com

Thomas Norman@normanlab.bsky.social · 7mo ago

New preprint on technologies to scale up CRISPR screens. We use them to map 665,856 pairwise genetic perturbations and outline a path to comprehensive interaction mapping in human cells. We also introduce an approach for cloning lentiviral libraries with billions of elements.

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Linde Miles@lindemileslab.bsky.social · 7mo ago

Only 10 Days Left for MYELOID2026 early Bird registration! Prices go up on 1/16! Please share! Register Here: HOME - FIFTEENTH INTERNATIONAL WORKSHOP ON MOLECULAR ASPECTS OF MYELOID STEM CELL DEVELOPMENT AND LEUKEMIA share.google/6UyBgsz0TqDW...

FIFTEENTH INTERNATIONAL WORKSHOP ON MOLECULAR ASPECTS OF MYELOID STEM CELL DEVELOPMENT AND LEUKEMIA.

The Myeloid Meeting is a premier conference advancing research, treatment, and collaboration in myeloid malignancies.

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Arjun Raj@arjunraj.bsky.social · 9mo ago

So awesome to have this great paper from Sam Reffsin and Sara Cherry out! In it, we use retrospective clone tracing to show that there are particular single cell states that are more susceptible to viral infection (both SARS-CoV-2 and flu)! www.cell.com/cell/fulltex...

Single-cell susceptibility to viral infection is driven by variable cell states

Not all cells that can be infected by a virus become infected with that virus. Single-cell clone tracing reveals intrinsic cell states with variable expression patterns that increase susceptibility to...

cell.com

Payam Gammage@mito-oncogene.bsky.social · 9mo ago

For those who’d like a high level summary of our paper today, please check out the accompanying research briefing: www.nature.com/articles/s41...

Functional dominance in the central dogma of tumor mitochondrial genetics - Nature Genetics

We have discovered recurrent, somatic mutations in mitochondrial ribosomal RNA genes across all tumor types assessed. In contrast with the established idea that the majority of mitochondrial DNA molec...

nature.com

Payam Gammage@mito-oncogene.bsky.social · 9mo ago

Excited to share our latest work in collaboration with the @edreznik.bsky.social lab @mskcancercenter.bsky.social, where we describe functionally dominant mitochondrial DNA mutations in patient tumors. So, what is functional dominance in mitochondrial genetics, I hear you ask? rdcu.be/eN1jm

Functionally dominant hotspot mutations of mitochondrial ribosomal RNA genes in cancer

Nature Genetics - Analysis of 14,106 tumor genomes highlights recurrent mutations in mitochondrial ribosomal RNA encoded within the mitochondrial genome. Mutations occur at hotspot positions and...

rdcu.be

Ana Janeva@anajaneva.bsky.social · 2y ago

I am thrilled to share that our latest pre-print from the @evahoermanseder.bsky.social lab 🐸🧬, is now online! Check it out here: www.biorxiv.org/content/10.1... Highlights and key findings from our study in the thread below 👇

Digital Reprogramming Decodes Epigenetic Barriers of Cell Fate Changes

Fates of differentiated cells in our body can be induced to change by nuclear reprogramming. In this way, cells valuable for therapeutic purposes and disease modeling can be produced. However, the eff...

biorxiv.org