Yang Xie

The paper identifies germline mutations in complex I subunits as a driver of Warburg metabolism in oncocytic thyroid carcinoma through loss of heterozygosity.

This paper uses large language models to extract prognostic histologic features from Ewing sarcoma pathology reports, identifying NSE and S100 as significant biomarkers.

This study creates inducible EWSR1-FLI1 degron alleles in tumor cell lines to control fusion oncoprotein expression, showing reversible cell cycle arrest and tumor growth suppression in xenografts.

The paper introduces a Bayesian framework to map cell-cell interactions from spatial transcriptomics data, revealing new biological insights in cancer and immune responses.

The paper introduces a Bayesian clustering method with feature selection for spatially resolved transcriptomics data, improving accuracy through a zero-inflated negative binomial model and geospatial integration.

This study compares neuroendocrine (NE) features in SCLC and NBL, finding similar molecular profiles and shared therapeutic responses but no significant survival association with NE scores.

The paper presents a pan-cancer PDX histology image repository with genomic and pathological annotations for deep learning analysis of tumor regions and xenograft-transplant lymphoproliferative disorder prediction.

This paper develops Sprod, a method to denoise spatial transcriptomics data using location and image information, improving downstream analyses.

MetaPrism enables joint analysis of taxa and gene abundances in metagenomic data to identify potential biomarkers for therapeutic response prediction.

MB-GAN generates synthetic microbiome data that mimic real datasets, preserving key statistical properties for method development.

The paper develops a deep learning tool to analyze pathology images and identify TME features predictive of survival in lung cancer.

This study identifies circE7, a circular RNA from HPV that is translated into E7 oncoprotein, contributing to cervical cancer progression.

This study shows that loss of the lncRNA Norad leads to PUMILIO hyperactivity, causing genomic instability and mitochondrial dysfunction, resulting in premature aging in mice.