Author

Rituparna Khan

Florida State UniversityORCID 0009-0004-3293-9861Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Research Focus:clustering· 2 Assay:scRNA-seq· 2 Approach:statistical model· 2 Approach:graph neural network· 1 Research Focus:software / tool· 1 Research Focus:trajectory inference· 1 Assay:whole-exome sequencing· 1

Frequent Co-Authors

Xian MalloryiD· 3 shared Xin ZhouiD· 2 shared Hongmei ChiiD· 1 shared Jingchao NiiD· 1 shared Judy Wang· 1 shared Liting ZhangiD· 1 shared Liting Zhang· 1 shared Pankaj BhattaraiiD· 1 shared

Activity by Year

2023-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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3 shared papersBioinformatics

Xian MalloryORCID

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Author profile →

3 papers

Recent·Most cited

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

Teja Potu, Yunfei Hu, Judy Wang, Hongmei Chi, Rituparna Khan, Srinija Dharani, Jingchao Ni, Liting Zhang, Xin Zhou, 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.

Mathematics · Dec 23, 2025Peer-reviewedBioinformatics

scLongTree: an accurate computational tool to infer the longitudinal tree for scDNAseq data

Rituparna Khan, Pankaj Bhattarai, Liting Zhang, Xin Zhou, Xian Mallory

scLongTree infers subclonal trees from longitudinal scDNA-seq data, outperforming existing tools in accuracy and scalability.

bioRxiv · Nov 11, 2023 · PreprintBioinformatics

Assessing the Performance of Methods for Cell Clustering from Single-cell DNA Sequencing Data

Rituparna Khan, Xian Mallory

This paper benchmarks six cell clustering tools for single-cell DNA sequencing data, finding BnpC and SCG have highest accuracy, SBMClone excels in ultra-low coverage data.

PLoS Computational Biology · Oct 12, 2023Peer-reviewedBioinformatics