- Learning predictive signatures of HLA type from T-cell repertoires
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Research Article | published 06 Jan 2025 PLOS Computational Biology
- Orchard: Building large cancer phylogenies using stochastic combinatorial search
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Methods | published 30 Dec 2024 PLOS Computational Biology
- Multicellular model of neuroblastoma proposes unconventional therapy based on multiple roles of p53
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Research Article | published 23 Dec 2024 PLOS Computational Biology
- A regression based approach to phylogenetic reconstruction from multi-sample bulk DNA sequencing of tumors
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Research Article | published 04 Dec 2024 PLOS Computational Biology
- scMSI: Accurately inferring the sub-clonal Micro-Satellite status by an integrated deconvolution model on length spectrum
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Research Article | published 02 Dec 2024 PLOS Computational Biology
- Non-genetic differences underlie variability in proliferation among esophageal epithelial clones
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Research Article | published 28 Oct 2024 PLOS Computational Biology
- nf-core/airrflow: An adaptive immune receptor repertoire analysis workflow employing the Immcantation framework
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Software | published 26 Jul 2024 PLOS Computational Biology
- Scuphr: A probabilistic framework for cell lineage tree reconstruction
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Research Article | published 09 May 2024 PLOS Computational Biology
- Developmental hourglass: Verification by numerical evolution and elucidation by dynamical-systems theory
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Research Article | published 29 Feb 2024 PLOS Computational Biology
- A zero-agnostic model for copy number evolution in cancer
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Research Article | published 09 Nov 2023 PLOS Computational Biology
- A Bayesian method to infer copy number clones from single-cell RNA and ATAC sequencing
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Research Article | published 02 Nov 2023 PLOS Computational Biology
- Assessing the performance of methods for cell clustering from single-cell DNA sequencing data
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Research Article | published 12 Oct 2023 PLOS Computational Biology
- Phertilizer: Growing a clonal tree from ultra-low coverage single-cell DNA sequencing of tumors
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Research Article | published 11 Oct 2023 PLOS Computational Biology
- LRT: Integrative analysis of scRNA-seq and scTCR-seq data to investigate clonal differentiation heterogeneity
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Research Article | published 10 Jul 2023 PLOS Computational Biology
- Inferring evolutionary trajectories from cross-sectional transcriptomic data to mirror lung adenocarcinoma progression
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Research Article | published 25 May 2023 PLOS Computational Biology
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