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Updated: Jan 13, 2026
Method for Measuring the Activity of Deubiquitinating Enzymes in Cell Lines and Tissue Samples
Published on: May 10, 2015
Single-Cell RNA-seq Reveals Deubiquitination Genes as Prognostic Markers in Hepatocellular Carcinoma
Xuening Lv1, Chaozhou Chen2, Shuxian Zhang1
1Department of Gastroenterology, The First People's Hospital of Lianyungang, Lianyungang, China, lygyy.com.cn.
Background:
Hepatocellular carcinoma (HCC) carries a dismal prognosis, yet the contribution of deubiquitination-an essential posttranslational regulator-to its progression remains poorly defined.
Methods:
Single-cell RNA-seq profiles of 13 treatment-naïve HCC tumors were integrated with 374 TCGA and 243 ICGC bulk RNA-seq cohorts. Deubiquitinase (DUB) activity was quantified per cell with AUCell; pathway enrichment was performed with clusterProfiler. A LASSO-Cox machine learning pipeline was used to build a DUB-based risk signature, which was cross-validated internally and externally by time-dependent ROC analysis.
Results:
Malignant cells exhibited divergent DUB transcription relative to immune compartments (myeloid, B). DUB-high neoplastic subsets displayed heightened inflammatory and IFN-γ signaling, concordant with brisk immune infiltration. A 78-gene prognostic index robustly stratified survival in discovery and replication cohorts.
Conclusions:
This study highlights the role of deubiquitination in HCC progression and its potential as a prognostic biomarker. The developed model could serve as a valuable tool for patient stratification and personalized treatment strategies, although further experimental validation is needed to confirm these findings.
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