Author

Hongmei Chi

Florida Agricultural and Mechanical UniversityORCID 0000-0003-4610-6479Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Approach:deep learning· 1 Approach:graph neural network· 1 Organism:human· 1 Assay:scRNA-seq· 1 Assay:whole-exome sequencing· 1

Frequent Co-Authors

Xian MalloryiD· 2 shared Xin ZhouiD· 2 shared Jingchao NiiD· 1 shared Judy Wang· 1 shared Liting ZhangiD· 1 shared Pankaj BhattaraiiD· 1 shared Rituparna KhaniD· 1 shared Srinija Dharani· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersBioinformatics

Xian MalloryORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintJul 3, 2026

Multi-modality Graph Representation Learning for Malignant Cell Identification from scRNA-seq using DeepMalignant

Pankaj Bhattarai, Weiman Yuan, Hongmei Chi…·Xian Mallory

DeepMalignant identifies malignant cells in scRNA-seq data by integrating gene expression and CNA, outperforming existing methods across multiple cancer types and platforms.

1 citation

humanscRNA-seq

𝕏 PostBluesky

BioinformaticsMathematicsPeer-reviewedDec 23, 2025

SCGclust: Single Cell Graph clustering using graphautoencoders integrating SNVs and CNAs

Teja Potu, Yunfei Hu, Judy Wang…·Xian Mallory

SCGclust integrates SNVs and CNAs using a graph autoencoder for cell clustering, achieving higher accuracy than existing methods on simulated and real cancer data.

1 citation

whole-exome sequencinggraph neural network

𝕏 PostBluesky