Author

Tianci Song

University of Minnesota

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

Biology Disciplines

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Bioinformatics· 4

Signature Assays, Organisms & Methods

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Assay:spatial transcriptomics· 4 Approach:statistical model· 3 Approach:graph neural network· 2 Research Focus:imputation· 2 Approach:matrix factorization· 2 Organism:mouse· 2 Research Focus:spatial domain detection· 2 Research Focus:benchmarking· 1

Frequent Co-Authors

Rui KuangiD· 4 shared Charles BroadbentiD· 1 shared Eric Cosatto· 1 shared Gaoyuan WangiD· 1 shared Jeongsik YongiD· 1 shared Jonathan WarrelliD· 1 shared Mark GersteiniD· 1 shared Martin Renqiang MiniD· 1 shared

Activity by Year

2021-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 20 mutual co-author links

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4 shared papersBioinformatics

Rui KuangORCID

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4 papers

Recent·Most cited

CTFacTomo: Reconstructing 3D Spatial Structures of RNA Tomography Transcriptomes by Collapsed Tensor Factorization

Tianci Song, Quoc Nguyen, Charles Broadbent, Rui Kuang

CTFacTomo reconstructs 3D spatial gene expressions from RNA tomography data using tensor factorization and regularization, outperforming benchmarks on zebrafish and mouse datasets.

PLoS Computational Biology · Mar 13, 2026Peer-reviewedBioinformatics

Predicting Spatially Resolved Gene Expression via Tissue Morphology using Adaptive Spatial GNNs

Tianci Song, Eric Cosatto, Gaoyuan Wang, Rui Kuang, Mark Gerstein, Martin Renqiang Min, Jonathan Warrell

This paper predicts spatial gene expression from histological images using adaptive spatial GNNs, improving performance on breast cancer data.

Bioinformatics · Jun 19, 2024Peer-reviewedBioinformatics

FIST-nD: A tool for n-dimensional spatial transcriptomics data imputation via graph-regularized tensor completion

Thomas Karl Atkins, Tianci Song, Rui Kuang

FIST-nD imputes 2D and 3D spatial transcriptomics data using graph-regularized tensor completion, improving accuracy for downstream analyses.

bioRxiv · Oct 12, 2022 · PreprintBioinformatics

Imputation of Spatially-resolved Transcriptomes by Graph-regularized Tensor Completion

Zhuliu Li, Tianci Song, Jeongsik Yong, Rui Kuang

This paper introduces FIST, a graph-regularized tensor completion model for imputing missing mRNA expressions in spatial transcriptomics data, showing improved performance over existing methods.

PLoS Computational Biology · Apr 7, 2021Peer-reviewedBioinformatics