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Proteomics|May 17, 2022
Computational systems approach towards phosphoproteomics and their downstream regulationDi Xiao, Carissa Chen, Pengyi YangGenome Biology|January 15, 2024
Evaluating spatially variable gene detection methods for spatial transcriptomics dataCarissa Chen, Hani Jieun Kim, Pengyi YangBioinformatics (Oxford, England)|June 18, 2024
Interpretable deep learning in single-cell omicsManoj M Wagle, Siqu Long, Carissa Chen, et al.Bioinformatics (Oxford, England)|September 22, 2025
CLUEY enables knowledge-guided clustering and cell type detection from single-cell omics dataDaniel Kim, Carissa Chen, Lijia Yu, et al.STAR Protocols|June 21, 2021
Protocol for the processing and downstream analysis of phosphoproteomic data with PhosRHani Jieun Kim, Taiyun Kim, Di Xiao, et al.Bioinformatics (Oxford, England)|January 11, 2022
Functional analysis of the stable phosphoproteome reveals cancer vulnerabilitiesDi Xiao, Hani Jieun Kim, Ignatius Pang, et al.Science Advances|October 31, 2025
BrainSTEM: A single-cell multiresolution fetal brain atlas reveals transcriptomic fidelity of human midbrain culturesHilary S Y Toh, Lisheng Xu, Carissa Chen, et al.Genome Biology|April 29, 2025
SpaNorm: spatially-aware normalization for spatial transcriptomics dataAgus Salim, Dharmesh D Bhuva, Carissa Chen, et al.Nature Methods|October 14, 2025
Multitask benchmarking of single-cell multimodal omics integration methodsChunlei Liu, Sichang Ding, Hani Jieun Kim, et al.Pageof 63