Fabian Kern, PhD
@fabianmkern.bsky.social
Machine learning in Bioinformatics - Currently @uni-hamburg.de (UHH)
https://www.zbh.uni-hamburg.de/en/forschung/mlbi.html
https://www.zbh.uni-hamburg.de/en/forschung/mlbi.html
Pinned
Fabian Kern, PhD
@fabianmkern.bsky.social
· Dec 16
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...
Reposted by Fabian Kern, PhD
Just out:
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
doi.org/10.1093/nar/...
#openscience #scRNAseq
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
doi.org/10.1093/nar/...
#openscience #scRNAseq
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
doi.org
November 24, 2025 at 2:10 PM
Just out:
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
doi.org/10.1093/nar/...
#openscience #scRNAseq
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
doi.org/10.1093/nar/...
#openscience #scRNAseq
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.
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...
September 19, 2025 at 8:38 AM
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.
Reposted by Fabian Kern, PhD
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
August 29, 2025 at 2:15 PM
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
Reposted by Fabian Kern, PhD
Reposted by Fabian Kern, PhD
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
March 18, 2025 at 11:06 AM
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
Reposted by Fabian Kern, PhD
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...
doi.org/10.1038/s414...
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...
doi.org
February 26, 2025 at 9:31 AM
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...
doi.org/10.1038/s414...
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...
December 16, 2024 at 2:27 PM
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...