Frederick Klauschen

Matched primary-metastasis single-nucleus and spatial profiling of leiomyosarcoma identifies antigen-presenting fibroblasts at the tumor-organ interface

This study uses single-nucleus RNA sequencing and spatial transcriptomics to compare primary and metastatic leiomyosarcoma, identifying antigen-presenting fibroblasts associated with metastasis.

Integrating UHPLC-MS and MALDI-MSI for Spatial Nucleoside Profiling in FFPE Breast Cancer: A Multimodal Molecular Pathology Framework

This paper develops a workflow integrating UHPLC-MS and MALDI-MSI to spatially map nucleosides in FFPE breast cancer tissues, revealing metabolic changes across tumor stages and validating findings in patient samples.

Prospective pan-cancer phosphoproteomics at clinical scale extends therapeutic options in precision oncology

This study uses pan-cancer phosphoproteomics to identify therapeutic targets and improve precision oncology by analyzing 1,998 tumor samples and developing new scores for kinase activity and immune response.

Pan-cancer virtual spatial transcriptomics from routine histology with Phoenix

Phoenix predicts spatially resolved single-cell gene expression from histology, identifying new biomarkers and validating them across cancers and treatment regimens.

Digital Spatial Pathway Mapping Reveals Prognostic Tumor States in Head and Neck Cancer

This paper introduces a method to infer signaling pathway activities from H&E slides in HNSCC, revealing two prognostic tumor states.

OpenDVP: An experimental and computational framework for community-empowered deep visual proteomics

The paper introduces openDVP, a framework for deep visual proteomics, demonstrating its application in three tissue studies to integrate spatial single-cell phenotypes with proteomic data.

nanoPhos enables ultra-sensitive and cell-type resolved spatial phosphoproteomics

nanoPhos improves phosphoproteomics sensitivity and enables cell-type resolved spatial analysis of mouse brain tissue.

A cost-effective and scalable approach for DNA extraction from FFPE tissues

This paper presents a high-throughput DNA extraction method for FFPE tissues that is cost-effective and scalable, producing methylation profiles comparable to traditional methods.

High-resolution molecular atlas of a lung tumor in 3D

This paper presents a 3D spatial atlas of a human lung carcinoma, revealing tumor microenvironment niches and their associated immune interactions and survival outcomes.