Author

E. Ruppin

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Preprint Sep 2026

STP-BENCH: A Unified Systematic Benchmark for Virtual Spatial Transcriptomics from Histopathology Images

STP-BENCH is presented, a standardized benchmark for virtual ST models and systematically examines which genes and gene sets are recoverable from histomorphology, and evaluates the downstream biological utility of predicted profiles through cell-type deconvolution and spatial domain identification.

Youngmin Chung, Hun-Ha Ji, Andrew H. Song et al. · 0 citations

Open access Jul 2026

Proteomic Profiling Identifies CLDN3 as a Tumor-Selective Therapeutic Target in Small Cell Lung Cancer

An integrated proteogenomic pipeline combining single-cell RNA sequencing, combinatorial optimization, mass spectrometry–based proteomics, and immunohistochemistry is developed to systematically map the SCLC surfaceome of 49 tumors across 25 patients with relapsed SCLC and found claudin-3 (CLDN3) to be a consistently e...

Brett Schroeder, Jaehyun Choi, Alejandro A. Schäffer et al. · bioRxiv · 0 citations

Open access Aug 2026

Engineering editopes through programmable RNA editing toward tumor neoantigen generation.

Short Precise-Encodable ADAR Recruiting (SPEAR) gRNAs are developed that harness endogenous ADAR1 to direct precise adenosine-to-inosine (A-to-I) editing at selected transcript sites and demonstrate the generation of immunogenic neoepitopes through RNA editing at the transcript level, termed editopes.

R. Pecori, Beatrice Casati, Rona Merdler-Rabinowicz et al. · EMBO Journal · 0 citations