Search Results - "Burkhardt DB"

MIAAIM: Multi-omics image integration with dimensional reduction for tissue state mapping.

Authors: Hess, Joshua M. Dzeng, Richard K. Ilieş, Iulian et al.

Source: PLoS Computational Biology. 5/26/2026, Vol. 22 Issue 5, p1-31. 31p.

Author Correction: Visualizing structure and transitions in high-dimensional biological data.

Authors: Moon KR van Dijk D Wang Z et al.

Source: Nature biotechnology [Nat Biotechnol] 2020 Jan; Vol. 38 (1), pp. 108.

Publication Type: Published Erratum

Journal Info: Publisher: Nature America Publishing Country of Publication: United States NLM ID: 9604648 Publication Model: Print Cited Medium: Internet ISSN: 1546-1696 (Electronic) Linking ISSN: 10870156 NLM ISO Abbreviation: Nat Biotechnol Subsets: MEDLINE; PubMed not MEDLINE

BiCLUM: Bilateral contrastive learning for unpaired single-cell multi-omics integration.

Authors: Guo, Yin Mallona, Izaskun Robinson, Mark D. et al.

Source: PLoS Computational Biology. 2/3/2026, Vol. 22 Issue 2, p1-33. 33p.

Dynamic modelling of cell cycle arrest through integrated single-cell and mathematical modelling approaches.

Authors: Cortés-Ríos, Javiera Rodriguez-Fernandez, Maria Sorger, Peter Karl et al.

Source: PLoS Computational Biology. 10/7/2025, Vol. 21 Issue 10, p1-20. 20p.

Decoding and steering spatially resolved cellular dynamics.

Authors: Wu, Jiahao Jin, Suoqin

Source: Molecular Systems Biology. Jul2026, Vol. 22 Issue 7, p1037-1039. 3p.

Calibrating dimension reduction hyperparameters in the presence of noise.

Authors: Lin, Justin Fukuyama, Julia

Source: PLoS Computational Biology. 9/12/2024, Vol. 20 Issue 9, p1-19. 19p.

Building a continuous benchmarking ecosystem in bioinformatics.

Authors: Mallona, Izaskun Soneson, Charlotte Carrillo, Ben et al.

Source: PLoS Computational Biology. 11/13/2025, Vol. 21 Issue 11, p1-15. 15p.

On feature selection to disentangle cell type and state transcriptional programs.

Authors: Wang, Jiayi Crowell, Helena L. Robinson, Mark D.

Source: BMC Genomics. 11/6/2025, Vol. 26 Issue 1, p1-9. 9p.

Unveiling inter-embryo variability in spindle length over time: Towards quantitative phenotype analysis.

Authors: Le Cunff, Yann Chesneau, Laurent Pastezeur, Sylvain et al.

Source: PLoS Computational Biology. 9/5/2024, Vol. 20 Issue 9, p1-29. 29p.

Reusable rule-based cell cycle model explains compartment-resolved dynamics of 16 observables in RPE-1 cells.

Authors: Lang, Paul F. Penas, David R. Banga, Julio R. et al.

Source: PLoS Computational Biology. 1/8/2024, Vol. 20 Issue 1, p1-24. 24p.

Obesity enhances ovarian cancer chemotherapy efficacy through C1q-mediated tumor targeting and immune activation.

Authors: Xu, Shiyi Bie, Nana Su, Xinzhuang et al.

Source: Journal of Nanobiotechnology. 8/22/2025, Vol. 23 Issue 1, p1-18. 18p.

Multiscale learning of gene network-driven phenotypic dynamics of single cells.

Authors: Zhang D Li J Nie Q et al.

Source: Molecular systems biology [Mol Syst Biol] 2026 Jun 05. Date of Electronic Publication: 2026 Jun 05.

Publication Type: Journal Article

Journal Info: Publisher: EMBO Press Country of Publication: Germany NLM ID: 101235389 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1744-4292 (Electronic) Linking ISSN: 17444292 NLM ISO Abbreviation: Mol Syst Biol Subsets: MEDLINE

Expansion omics: from expansion microscopy to spatial omics.

Authors: Dong, Zhen Xiang, Weirong Jiang, Wenhao et al.

Source: Molecular Systems Biology. Feb2026, Vol. 22 Issue 2, p165-178. 14p.

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Using deep learning to decipher the impact of telomerase promoter mutations on the dynamic metastatic morpholome.

Authors: Nevarez, Andres J. Mudla, Anusorn Diaz, Sabrina A. et al.

Source: PLoS Computational Biology. 7/30/2024, Vol. 20 Issue 7, p1-22. 22p.

Graph neural network approaches for single-cell data: a recent overview.

Authors: Lazaros, Konstantinos Koumadorakis, Dimitris E. Vlamos, Panagiotis et al.

Source: Neural Computing & Applications; Jun2024, Vol. 36 Issue 17, p9963-9987, 25p

Clustering and visualization of single-cell RNA-seq data using path metrics.

Authors: Manousidaki, Andriana Little, Anna Xie, Yuying

Source: PLoS Computational Biology. 5/29/2024, Vol. 20 Issue 5, p1-19. 19p.

Transcriptomic characterization of transitioning cell types in the skin of Atlantic salmon.

Authors: Ruiz Daniels, R. Salisbury, S. J. Sveen, L. et al.

Source: BMC Biology. 4/28/2025, Vol. 23 Issue 1, p1-20. 20p.

Investigation of cell development and tissue structure network based on natural Language processing of scRNA-seq data.

Authors: Wei, Suwen Lu, Yuer Wang, Peng et al.

Source: Journal of Translational Medicine. 3/4/2025, Vol. 23 Issue 1, p1-12. 12p.

scMFG: a single-cell multi-omics integration method based on feature grouping.

Authors: Ma, Litian Liu, Jingtao Sun, Wei et al.

Source: BMC Genomics. 2/11/2025, Vol. 26, p1-13. 13p.