C&EN

In Silico Computational Transcriptomics Reveals Novel Endocrine Disruptors in Largemouth Bass (Micropterus salmoides)

Henan Open Laboratory of Key Subjects of Environmental and Animal Products Safety, College of Animal Science and Technology, Henan University of Science and Technology, Henan 471003, China Center for ...
GitHub

STHELAR, a multi-tissue dataset linking spatial transcriptomics and histology for cell type annotation

A detailed description of the pipeline, methods, and results can be found in the following article: Giraud-Sauveur, F., Blampey, Q., Benkirane, H. et al. STHELAR, a multi-tissue dataset linking ...
Medical Xpress

Spatial transcriptomics guides inflammatory bowel disease research

A novel spatial transcriptomics atlas developed by Northwestern Medicine scientists may improve the understanding of niche cellular interactions in the gastrointestinal tract that promote the ...
gut.bmj

Spatial transcriptomics reveals a low extent of transcriptionally active hepatitis B virus integration in patients with HBsAg loss

Objective Hepatitis B virus (HBV) can integrate into the chromosomes of infected hepatocytes, contributing to the production of hepatitis B surface antigen (HBsAg) and to hepatocarcinogenesis. In this ...
Business Wire

Takara Bio USA, Inc. Validates New Class of Spatial Technology with Benchmark Study for Cancer Research

SAN JOSE, Calif.--(BUSINESS WIRE)--Takara Bio USA, Inc., a wholly owned subsidiary of Takara Bio Inc. ("Takara Bio"), today announced data from a benchmark study comparing key performance metrics of ...
EurekAlert!

New review decodes transcriptomics: bulk vs. single-cell RNA sequencing

A comprehensive review article titled “Bioinformatics perspectives on transcriptomics: A comprehensive review of bulk and single-cell RNA sequencing analyses,” published in Quantitative Biology, ...
GitHub

Comparison of imaging based single-cell resolution spatial transcriptomics profiling platforms using formalin-fixed paraffin-embedded tumor samples

Code repository for our paper. Raw data are in the GEO database. Source data of images are in supplementary data in the publication. The CosMx SMI, MERFISH and Xenium raw data generated in this study ...
ascopubs.org

Spatial transcriptomics for profiling the microenvironment of cervical precancer progression from routine H&E slides: Applications for pharmaceutical development.

An AI-powered complete blood count panel for high-grade cervical lesion identification: A multicentric retrospective study. This is an ASCO Meeting Abstract from the 2025 ASCO Annual Meeting I. This ...
Cancer Research

Abstract 5063: Hepatomap: An interactive shiny app for spatial transcriptomics insights in hepatocellular carcinoma

Cancer Res (2025) 85 (8_Supplement_1): 5063. Hepatocellular carcinoma (HCC) is a heterogeneous cancer where spatial context and cellular microenvironments influence disease progression and therapeutic ...
ascopubs.org

A universal pipeline to combine spatial transcriptomics, proteomics, and diagnostic H&E assays on a single tissue section to study tissue microenvironment.

Tumor purity as confounder for the determination of tumor mutational burden (TMB). This is an ASCO Meeting Abstract from the 2024 ASCO Annual Meeting I. This abstract does not include a full text ...
eLife

Spotless, a reproducible pipeline for benchmarking cell type deconvolution in spatial transcriptomics

This study makes a valuable contribution to spatial transcriptomics by rigorously benchmarking cell-type deconvolution methods, assessing their performance across diverse datasets with a focus on ...