Xuesong Liu

c-Abl Kinase Targets Tight Junction Protein ZO-2 in Regulation of Cell Migration and Morphology

This study identifies ZO-2 as a target of c-Abl kinase, showing that c-Abl phosphorylates ZO-2 and regulates cell migration and morphology.

Single-cell copy number alteration signature analysis reveals masked patterns and potential biomarkers for cancer

This study analyzes CNA signatures in single-cell and bulk samples of hepatocellular carcinoma, revealing masked patterns and potential biomarkers for prognosis and treatment.

Precise metabolic dependencies of cancer through deep learning and validations

This study uses deep learning to predict metabolic vulnerabilities in cancer cells and validates findings using TCGA data, showing improved clinical responses to targeted therapies.

Tumor hypoxia adaptation depends on FLAD1 mediated mitochondrial metabolic reprogramming

The paper identifies FLAD1 as a key gene for hypoxia adaptation in tumors and develops a deep learning model to predict hypoxia-dependent metabolic genes.

The repertoire of copy number alteration signatures in human cancer

This study identifies 14 CNA signatures from pan-cancer WGS and TCGA SNP array data, revealing novel patterns and prognostic implications for cancer patients.

Seq2Neo: a comprehensive pipeline for cancer neoantigen im-munogenicity prediction

Seq2Neo predicts neoantigen immunogenicity using a CNN model trained on genomic alterations, outperforming existing tools in independent datasets.

Hiplot: a comprehensive and easy-to-use web service boosting publication-ready biomedical data visualization

Hiplot provides a web service with 230+ interactive visualization tools for biomedical data, enabling users to generate publication-ready graphics without advanced expertise.

Essential role for Ggct in erythrocyte antioxidant defense

This study shows that Ggct deletion in mice causes splenomegaly and anemia due to oxidative damage and reduced glutathione in red blood cells.

Copy number signature analyses in prostate cancer reveal distinct etiologies and clinical outcomes

This study identifies five copy number signatures in prostate cancer using sigminer, revealing distinct etiologies and improved clinical outcome associations compared to single base substitution signatures.

Sigflow: an automated and comprehensive pipeline for cancer genome mutational signature analysis

Sigflow is a pipeline for comprehensive cancer genome mutational signature analysis, supporting multiple DNA alteration types and offering reproducible research through Docker.

Revisiting neoantigen depletion signal in the untreated cancer genome

This paper critiques a previous study that claimed no neoantigen depletion signal in untreated cancer genomes, arguing that the study's methodology is flawed due to misalignment between defined HLA-binding regions and actual immunogenic neoantigens.