Dongyuan Song

According to our database, Dongyuan Song authored at least 8 papers between 2021 and 2026.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of five.

2026

<tt>ClusterDE</tt> : A Statistical Software Package for Removing Double-Dipping Bias in Post-Clustering Differential Expression Analysis.

Christy Lee, Dongyuan Song, Siqi Chen, Jingyi Jessica Li

J. Comput. Biol., 2026

2025

PseudotimeDE-fast: fast testing of differential gene expression along cell pseudotime.

Yuheng Lai, Dongyuan Song, Lucy Xia, Jingyi Jessica Li

Bioinform., 2025

Synthetic Control Removes Spurious Discoveries from Double Dipping in Single-Cell and Spatial Transcriptomics Data Analyses.

Dongyuan Song, Siqi Chen, Christy Lee, Kexin Li, Xinzhou Ge, Jingyi Jessica Li

Proceedings of the Research in Computational Molecular Biology, 2025

2022

Simulating Single-Cell Gene Expression Count Data with Preserved Gene Correlations by scDesign2.

Tianyi Sun, Dongyuan Song, Wei Vivian Li, Jingyi Jessica Li

J. Comput. Biol., 2022

scSampler: fast diversity-preserving subsampling of large-scale single-cell transcriptomic data.

Dongyuan Song, Nan Miles Xi, Jingyi Jessica Li, Lin Wang

Bioinform., 2022

Single-cell generalized trend model (scGTM): a flexible and interpretable model of gene expression trend along cell pseudotime.

Elvis Han Cui, Dongyuan Song, Weng Kee Wong, Jingyi Jessica Li

Bioinform., 2022

2021

Particle swarm optimization in constrained maximum likelihood estimation a case study.

Elvis Han Cui, Dongyuan Song, Weng Kee Wong

CoRR, 2021

scPNMF: sparse gene encoding of single cells to facilitate gene selection for targeted gene profiling.

Dongyuan Song, Kexin Li, Zachary Hemminger, Roy Wollman, Jingyi Jessica Li

Bioinform., 2021