Publications

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2023

Song, Tianci; Broadbent, Charlie; Kuang, Rui

GNTD: Reconstructing Spatial Transcriptomes with Graph-guided Neural Tensor Decomposition Informed by Spatial and Functional Relations Journal Article

In: Nature Communications, vol. 14, no. 8276, 2023.

Links | BibTeX | Tags: Protein-Protein Interaction Network, Spatial Transcriptomics, Tensor Completion

2022

Atkins, Thomas Karl; Song, Tianci; Kuang, Rui

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

2022.

Links | BibTeX | Tags: Protein-Protein Interaction Network, Spatial Transcriptomics, Tensor Completion

Song, Tianci; Markham, Kathleen K.; Li, Zhuliu; Muller, Kristen E.; Greenham, Kathleen; Kuang, Rui

Detecting Spatially Co-expressed Gene Clusters with Functional Coherence by Graph-regularized Convolutional Neural Network Journal Article

In: Bioinformatics, vol. 38, no. 5, pp. 1344–1352, 2022.

Links | BibTeX | Tags: Network-based Learning, Spatial Clustering, Spatial Transcriptomics

2021

Li, Zhuliu; Song, Tianci; Yong, Jeongsik; Kuang, Rui

Imputation of spatially-resolved transcriptomes by graph-regularized tensor completion Journal Article

In: PLoS computational biology, vol. 17, no. 4, pp. e1008218, 2021.

Links | BibTeX | Tags: Network-based Learning, Spatial Transcriptomics, Tensor Completion