- Integration of unpaired single cell omics data by deep transfer graph convolutional network
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Research Article | published 16 Jan 2025 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012625
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- The role of chromatin state in intron retention: A case study in leveraging large scale deep learning models
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Research Article | published 10 Jan 2025 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012755
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- Integrative analysis of ATAC-seq and RNA-seq for cells infected by human T-cell leukemia virus type 1
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Research Article | published 02 Jan 2025 PLOS Computational Biology
- Cancer molecular subtyping using limited multi-omics data with missingness
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Research Article | published 26 Dec 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012710
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- Predicting lung aging using scRNA-Seq data
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Research Article | published 19 Dec 2024 PLOS Computational Biology
- scMoMtF: An interpretable multitask learning framework for single-cell multi-omics data analysis
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Research Article | published 18 Dec 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012679
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- Integrative pan-cancer analysis reveals a common architecture of dysregulated transcriptional networks characterized by loss of enhancer methylation
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Research Article | published 18 Nov 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012565
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- IMI-driver: Integrating multi-level gene networks and multi-omics for cancer driver gene identification
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Methods | published 26 Aug 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012389
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- Regression convolutional neural network models implicate peripheral immune regulatory variants in the predisposition to Alzheimer’s disease
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Research Article | published 26 Aug 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012356
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- scaDA: A novel statistical method for differential analysis of single-cell chromatin accessibility sequencing data
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Methods | published 02 Aug 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1011854
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- Identifying topologically associating domains using differential kernels
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Research Article | published 15 Jul 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012221
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- Role of diffusion and reaction of the constituents in spreading of histone modification marks
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Research Article | published 11 Jul 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012235
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- Learning Micro-C from Hi-C with diffusion models
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Research Article | published 17 May 2024 PLOS Computational Biology
- Interpretable online network dictionary learning for inferring long-range chromatin interactions
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Research Article | published 16 May 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012095
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- Machine learning and multi-omics data reveal driver gene-based molecular subtypes in hepatocellular carcinoma for precision treatment
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Research Article | published 10 May 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012113
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