Karl Rohr

Post-operative tissue fragment puzzling using histopathological vision transformer alignment HiViTAlign

This paper introduces HiViTAlign, a computational pipeline that reassembles fragmented histopathological tissue sections using a vision transformer model, enabling spatial reconstruction of tissue fragments without ground truth.

Rapid and efficient isolation of intact engineered extracellular vesicles encapsulating functional proteins via internal twin Strep tetraspanin tagging and Strep technology

The paper develops a method to isolate intact engineered extracellular vesicles with high purity using twin-Strep tagging and Strep technology, enabling efficient and selective capture and functional delivery of proteins.

Super-resolution compatible DNA labeling technique reveals chromatin mobility and organization changes during differentiation

The paper develops a DNA labeling technique to study chromatin mobility and organization during neural differentiation, finding reduced chromatin mobility and increased compaction in differentiated cells.

MethylBERT: A Transformer-based model for read-level DNA methylation pattern identification and tumour deconvolution

MethylBERT is a Transformer-based model that identifies tumour-derived reads and estimates tumour purity from bulk samples, outperforming existing methods in accuracy.

Single-dose ethanol intoxication causes acute and lasting neuronal changes in the brain

The paper identifies acute and lasting molecular, cellular, and behavioral changes in mice after single-dose ethanol intoxication using proteomics and imaging.

A Probabilistic Approach For Registration Of Multi-Modal Spatial Transcriptomics Data

This paper introduces a probabilistic method for registering multi-modal spatial transcriptomics data and demonstrates its accuracy on synthetic and real mouse brain images.

Accessible and reproducible mass spectrometry imaging data analysis in Galaxy

The paper integrates mass spectrometry imaging tools into Galaxy to enable accessible, reproducible, and transparent analysis of MSI data.

Acute ethanol intoxication induces preferred loss of presynaptic boutons devoid of mitochondria in vivo

This study shows that acute ethanol intoxication causes loss of presynaptic boutons without mitochondria in mice, potentially explaining memory impairments.

Flat-to-curved transition during clathrin-mediated endocytosis correlates with a change in clathrin-adaptor ratio and is regulated by membrane tension

The paper shows clathrin-mediated endocytosis transitions from flat to curved structures when 70% of clathrin is assembled, driven by changes in clathrin-adaptor ratio and membrane tension.

Quantification of telomere features in tumor tissue sections by an automated 3D imaging-based workflow

This paper introduces an automated 3D imaging workflow to quantify telomere features in tumor tissue sections, enabling reliable assessment of telomere heterogeneity and sub-populations.