Spatial landscape of malignant pleural and peritoneal mesothelioma tumor immune microenvironment

Ma X, Lembersky D, Kim ES, Bruno TC, Testa JR, Osmanbeyoglu HU

University of Pittsburgh, UPMC Hillman Cancer Center
https://www.biorxiv.org/content/10.1101/2023.09.06.556559v1

ABSTRACT

To support the research community in investigating our malignant mesothelioma multiplex immunofluorescence (mIF) dataset, we created the web resource providing interactive visualizations mIF and hematoxylin and eosin (H&E) images of tumor samples. More specifically, our interactive web resource includes mIF images from tissue microarrays (TMAs, n=3) of samples from patients with malignant peritoneal and pleural mesothelioma (MPeM and MPM, respectively) to elucidate the spatial distributions of major immune cell populations and their association with LAG3, BAP1, NF2, and MTAP expression, the latter as a proxy for CDKN2A/B. Our web resource provides unique and valuable data for testing hypotheses about malignant mesothelioma tumor immune microenvironment that could facilitate the understanding of pathogenesis and identify novel therapies.

TMA data

panel1_data_cleaned_final.parquet.gzip : TMA data for panel 1 parquet format

panel2_data_cleaned_final.parquet.gzip : TMA data for panel 2 parquet format

panel1_data_cleaned_final.csv : TMA data for panel 1 csv format

panel2_data_cleaned_final.csv : TMA data for panel 2 csv format

data_for_neighborhood.csv : TMA sub data for neighborhood analysis

Analysis code

Code and documentation can be found in GitHub link github.com/osmanbeyoglulab/MesotheliomaSpatialAtlas_analyses

Mesothelioma Spatial Atlas website code

The github repository contains all the code for the website github.com/osmanbeyoglulab/MesotheliomaSpatialAtlas_webapp

Mesothelioma Spatial Atlas website core images

The github repository contains all the high resolution core images for the website https://github.com/osmanbeyoglulab/MesotheliomaSpatialAtlas_data