Author

Yidong Chen

The University of Texas at San Antonio Health Science Center

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

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Biology Disciplines

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Bioinformatics· 2 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Approach:statistical model· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:cancer & tumor microenvironment· 1 Research Focus:differential expression· 1 Approach:experimental assay· 1 Organism:human· 1

Frequent Co-Authors

Debodipta DasiD· 1 shared Devanand Sarkar· 1 shared Francis E. SharkeyiD· 1 shared Francisco G. CigarroaiD· 1 shared Hakim BouamariD· 1 shared Hung-I Harry Chen· 1 shared Jason XuiD· 1 shared Lu Cai· 1 shared

Activity by Year

2015-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 22 mutual co-author links

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1 shared paperCancer Biology

Debodipta DasORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

Distinct and shared synergistic effects of high-fat and high-iron diets on liver tumorigenesis and transcriptomic remodeling in mice

Debodipta Das, Hakim Bouamar, Xiaoli Sun, Jason Xu, Lu Cai, Yidong Chen, Francis E. Sharkey, Sukeshi Patel Arora, Francisco G. Cigarroa, Lu‐Zhe Sun

This study examines how high-fat and high-iron diets affect liver tumorigenesis and transcriptomic changes in mice, finding shared and distinct molecular effects.

bioRxiv · May 27, 2026 · PreprintCancer Biology

Benchmarking supervised signature-scoring methods for single-cell RNA sequencing data in cancer

Nighat Noureen, Zhenqing Ye, Yidong Chen, Xiaojing Wang, Siyuan Zheng

This study benchmarks four supervised signature-scoring methods for single-cell RNA sequencing data in cancer, showing that bulk-sample-based methods are biased while single-cell-based methods are more accurate.

eLife · Feb 25, 2022Peer-reviewedBioinformatics

Differential expression analysis of RNA sequencing data by incorporating non-exonic mapped reads

Hung-I Harry Chen, Yuanhang Liu, Yi Zou, Zhao Lai, Devanand Sarkar, Yufei Huang, Yidong Chen

This paper introduces XBSeq, a differential expression analysis algorithm for RNA-seq data that accounts for non-exonic mapped reads, showing improved performance in noisy conditions.

BMC Genomics · Jun 11, 2015Peer-reviewedBioinformatics