Fabian Kern, PhD

PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation Abstract. Single-cell transcriptomic studies of peripheral blood mononuclear cells (PBMCs) offer valuable insights into immune states across diverse biolog

Just out:

PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation

doi.org/10.1093/nar/...

#openscience #scRNAseq

24.11.2025 14:10 — 👍 5    🔁 1    💬 0    📌 0

Spatiotemporal transcriptomic niches of complement pathway and serine protease inhibitor activation in aging and infection Aging is a multifactorial and complex physiological process, affecting every organ with characteristic manifestations. Understanding the molecular mechanisms that drive aging processes is crucial to t...

Link to the current version: doi.org/10.1101/2024...

19.09.2025 08:39 — 👍 0    🔁 0    💬 0    📌 0

We just released a first revision of our pre-print below, adding small non-coding (miRNA)-sequencing samples for the infection cohort as well as spatial metabolomics experiments (the first of its kind) for the aging mouse brain, to enable a more powerful, integrative spatiotemporal gene analysis.

19.09.2025 08:38 — 👍 0    🔁 0    💬 1    📌 0

Angiopoietin signalling is a central axis of amyloid-driven vascular dysfunction in Alzheimer's disease https://www.biorxiv.org/content/10.1101/2025.08.25.672093v1

29.08.2025 14:15 — 👍 2    🔁 3    💬 0    📌 0

Bluesky now platform of choice for science community It’s not just you. Survey says: “Twitter sucks now and all the cool kids are moving to Bluesky”…

FUCK YEAH SCIENCE

arstechnica.com/science/2025...

27.08.2025 15:25 — 👍 17541    🔁 3381    💬 286    📌 268

New preprint alert! 🚀 @simongraf.bsky.social showcases dice and domino plots for intuitive data visualization. Check it out: github.com/maflot/Dicep... – a great tool for making complex data more accessible. #preprint #dataviz #Parkinsons #DLB #Covid19 #bioinformatics

18.03.2025 11:06 — 👍 3    🔁 4    💬 0    📌 0

A single-cell atlas to map sex-specific gene-expression changes in blood upon neurodegeneration - Nature Communications Neurodegenerative diseases are linked to changes in the immune system and inflammation. Here, the authors studied immune cells from healthy individuals and neurodegenerative diseases and identified se...

Thrilled to be part of this fantastic project led by Friederike Grandke, now published in Nature Communications! A deep dive into sex-specific gene-expression changes in blood during neurodegeneration—exciting insights ahead! #Neurodegeneration #SingleCell #GeneExpression

doi.org/10.1038/s414...

26.02.2025 09:31 — 👍 2    🔁 1    💬 0    📌 0

Study overview: Spatial transcriptomics mouse aging cohort

Study overview: Spatial transcriptomics mouse infection cohort

Annotated tissue gene expression clusters and representative samples

Comparison of C4b expression in the aged vs. malaria infected mouse brain

New preprint alert 🥁📣 We present 168 #spatial #transcriptomics samples (Visium + Stereoseq) - Annotating 100 molecular niches across mouse organs and finding spatial DEGs / pathways shared between #aging and systemic #infection. Pls share and read more: www.biorxiv.org/content/10.1...

16.12.2024 14:27 — 👍 9    🔁 3    💬 0    📌 1