Publications by authors named "Bassem Ben-Cheikh"

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Multi-omic spatial profiling reveals the unique SARS-CoV-2 lung microenvironment and collagen VI as a predictive biomarker in severe COVID-19.
Éanna Fennell, Graham S Taylor, Ciara I Leahy, Aisling M Ross, Gary Reynolds

Eur Respir J· September 2025

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Protocol for high-plex, whole-slide imaging of human formalin-fixed paraffin-embedded tissue using PhenoCycler-Fusion.
Meg L Donovan, Niyati Jhaveri, Ning Ma, Bassem Ben Cheikh, James DeRosa

STAR Protoc· September 2024

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Single-cell spatial multiomics reveals tumor microenvironment vulnerabilities in cancer resistance to immunotherapy.
Camelia Quek, Aditya Pratapa, Xinyu Bai, Ghamdan Al-Eryani, Inês Pires da Silva

Cell Rep· July 2024

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Single-cell and spatial profiling identify three response trajectories to pembrolizumab and radiation therapy in triple negative breast cancer.
Stephen L Shiao, Kenneth H Gouin, Nathan Ing, Alice Ho, Reva Basho, Bassem Ben-Cheikh

Cancer Cell· January 2024

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A machine learning one-class logistic regression model to predict stemness for single cell transcriptomics and spatial omics.
Felipe Segato Dezem, Maycon Marção, Bassem Ben-Cheikh, Nadya Nikulina, Ayodele Omotoso

BMC Genomics· November 2023

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A spatially resolved single-cell genomic atlas of the adult human breast.
Tapsi Kumar, Kevin Nee, Runmin Wei, Siyuan He, Quy H Nguyen

Nature· August 2023

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Compartmentalized spatial profiling of the tumor microenvironment in head and neck squamous cell carcinoma identifies immune checkpoint molecules and tumor necrosis factor receptor superfamily members as biomarkers of response to immunotherapy.
Habib Sadeghirad, Ning Liu, James Monkman, Ning Ma, Bassem Ben Cheikh

Front Immunol· May 2023

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A spatially resolved single cell genomic atlas of the adult human breast.
Tapsi Kumar, Kevin Nee, Runmin Wei, Siyuan He, Quy H Nguyen

bioRxiv· April 2023

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An N-Cadherin 2 expressing epithelial cell subpopulation predicts response to surgery, chemotherapy and immunotherapy in bladder cancer.
Kenneth H Gouin, Nathan Ing, Jasmine T Plummer, Charles J Rosser, Bassem Ben Cheikh

Nat Commun· August 2021

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Gland segmentation in colon histology images: The glas challenge contest.
Korsuk Sirinukunwattana, Josien P W Pluim, Hao Chen, Xiaojuan Qi, Pheng-Ann Heng

Med Image Anal· January 2017

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