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Niklas Schmacke

@nik-as.bsky.social
87 followers 252 following 2 posts

Shared PostDoc in Veit Hornung’s lab and Fabian Theis’ lab in Munich. Let‘s go.

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Reposted by Niklas Schmacke
Fabian Theis @fabiantheis.bsky.social · 28/09/2025
🚀 Excited to share scPortrait! Led by Sophia Mädler & Niklas Schmacke w/ the Mann lab — a new @scverse tool for standardized single-cell image data. Enables ML-ready extraction, >1B cell processing, cross-omics, & cancer macrophage insights. 🔗 www.biorxiv.org/content/10.1...
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Niklas Schmacke @nik-as.bsky.social · 28/09/2025
Want your biology AI model to learn spatial relationships? Add images as a modality! scPortrait enables fast, standardized generation and use of single-cell image datasets, powering AI/ML-based discovery. GitHub ⭐️: github.com/MannLabs/scP... Preprint 📚: www.biorxiv.org/content/10.1...
github.com
GitHub - MannLabs/scPortrait: scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images - MannLabs/scPortrait
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Reposted by Niklas Schmacke
Alexis Barr @alexisbarr.bsky.social · 07/07/2025
We're recruiting junior team leaders @mrc-lms.bsky.social This time we're looking for those working in human metabolic disease. It's a great place to start your lab. Fantastic colleagues, exciting science, world class facilities. Join us! lms.mrc.ac.uk/work/vacanci...
lms.mrc.ac.uk
Programme Leader Track - MRC Laboratory of Medical Sciences
We are recruiting Programme Leader Track positions focusing on 1) Metabolic Physiology using murine and/or human in vivo models and 2) Immunometabolism.
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Reposted by Niklas Schmacke
Jacob Schreiber @jmschreiber91.bsky.social · 03/06/2025
I wrote a quick application note on Tomtom-lite, a Python implementation of the Tomtom algorithm for comparing PWMs against each other. This implementation can be 10-1000x faster and, as a Python function, can be integrated into your workflows easier. www.biorxiv.org/content/10.1...
biorxiv.org
Tomtom-lite: Accelerating Tomtom enables large-scale and real-time motif similarity scoring
Summary Pairwise sequence similarity is a core operation in genomic analysis, yet most attention has been given to sequences made up of discrete characters. With the growing prevalence of machine lear...
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Reposted by Niklas Schmacke
Gene Center Munich @LMU Munich @genecenter-lmu.bsky.social · 22/05/2025
Wow, so cool!🌟 Excellence in Nucleic Acid Sciences and Technologies: NUCLEATE Cluster selected for national recognition Led by spokesperson Veit Hornung, the NUCLEATE Cluster secures funding in Germany’s Excellence Strategy 🥂🥳🤩 www.lmu.de/en/newsroom/... @v-hornung.bsky.social
lmu.de
NUCLEATE Cluster of Excellence: beacon of nucleic acid research
The new NUCLEATE Cluster of Excellence is all about nucleic acids. The research alliance seeks to better understand their various functions and open up new areas of application.
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Reposted by Niklas Schmacke
Kipoi @kipoizoo.bsky.social · 02/05/2025
Join us for our next Kipoi Seminar with Laura Martens, Gagneur lab, TUM @lauradmartens.bsky.social @gagneurlab.bsky.social @tum.de 🐕scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution 📅Wed May 7, 5:30pm CET 🧬https://kipoi.org/seminar/ 🦋kipoizoo.bsky
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Reposted by Niklas Schmacke
Tuuli Lappalainen @tuuliel.bsky.social · 05/05/2025
New preprint! My (now former) postdoc @kvastad.bsky.social led this integration of GWAS and spatial transcriptomics (ST) data to identify tissue structures with enrichment of disease-implicated genes = likely causal drivers of disease biology. www.biorxiv.org/content/10.1...
biorxiv.org
Spatial transcriptomics and genetically implicated genes identify putative causal tissue structures for complex traits
Spatially resolved transcriptomics is transforming our understanding of cellular and molecular diversity of tissues. Here, to identify tissue structures that are enriched for putatively causal disease...
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Reposted by Niklas Schmacke
Alex Merz 🇺🇸🇨🇦🇺🇦 @merz.bsky.social · 24/04/2025
Hi, everyone! My name is Alex. I'm a microbiologist/cell biologist/biochemist, and I'm sharing some of my career biography today for #YoungScientistNetworking. 1/
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Reposted by Niklas Schmacke
Sorek Lab @soreklab.bsky.social · 30/01/2025
Our paper out @Nature: CARD domains mediate anti-phage defense in bacterial gasdermin systems CARDs are essential for caspase recruitment during human inflammasome activation. We now find them in bacterial immune systems Congrats Tana Wein! Thank you Kranzusch lab! www.nature.com/articles/s41...
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Niklas Schmacke @nik-as.bsky.social · 25/01/2025
Had the pleasure of hearing this story at the recent inflammasomes meeting #3 in Munich. Really exciting data!
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