ArticleNature communications2024
DELVE: feature selection for preserving biological trajectories in single-cell data.
Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Trajectory-informed gene feature selection in single-cell analysis with SEEK-VFI.Cell reports methods · 2026Article
- Multi-omics mapping identifies a C/EBPβ-S100a4⁺ macrophage axis as a therapeutic target in acute spinal cord injury.Journal of translational medicine · 2026Article
- Quantifying stability via count splitting to guide model selection in RNA velocity analyses.bioRxiv : the preprint server for biology · 2026Article
- Mathematical analysis of G1/S sub-networks in hematopoietic proliferation: Sequential and lineage-specific activation.iScience · 2026Article
- LY-H as a potential screening biomarker for lymphocyte activation in peripheral blood.Frontiers in immunology · 2026Article
- Quantifying stability via count splitting to guide model selection in RNA velocity analyses.Bioinformatics advances · 2026Article
- Trajectory-informed gene feature selection in single-cell analysis with SEEK-VFI.bioRxiv : the preprint server for biology · 2025Article
- Microglia Single-Cell RNA-Seq Enables Robust and Applicable Markers of Biological Aging.Aging cell · 2025Article
- Redefining the high variable genes by optimized LOESS regression with positive ratio.BMC bioinformatics · 2025Article
- Feature selection methods affect the performance of scRNA-seq data integration and querying.Nature methods · 2025Article
- Spherical Manifolds Capture Drug-Induced Changes in Tumor Cell Cycle Behavior.Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · 2025Article
- Cell Cycle Plasticity and Heterogeneity: An Underappreciated Feature of Cancer and Treatment Response.Cancer heterogeneity and plasticity · 2025Article
- Leveraging Single-Cell RNA-Seq to Generate Robust Microglia Aging Clocks.bioRxiv : the preprint server for biology · 2024Article
- Mcadet: A feature selection method for fine-resolution single-cell RNA-seq data based on multiple correspondence analysis and community detection.PLoS computational biology · 2024Article
- DELVE: feature selection for preserving biological trajectories in single-cell data.Nature communications · 2024Article
- Cell cycle plasticity underlies fractional resistance to palbociclib in ER+/HER2- breast tumor cells.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Feature selection for preserving biological trajectories in single-cell data.bioRxiv : the preprint server for biology · 2023Article
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8 authors.
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Abstract
Single-cell technologies can measure the expression of thousands of molecular features in individual cells undergoing dynamic biological processes. While examining cells along a computationally-ordered pseudotime trajectory can reveal how changes in gene or protein expression impact cell fate, identifying such dynamic features is challenging due to the inherent noise in single-cell data. Here, we present DELVE, an unsupervised feature selection method for identifying a representative subset of molecular features which robustly recapitulate cellular trajectories. In contrast to previous work, DELVE uses a bottom-up approach to mitigate the effects of confounding sources of variation, and instead models cell states from dynamic gene or protein modules based on core regulatory complexes. Using simulations, single-cell RNA sequencing, and iterative immunofluorescence imaging data in the context of cell cycle and cellular differentiation, we demonstrate how DELVE selects features that better define cell-types and cell-type transitions. DELVE is available as an open-source python package: https://github.com/jranek/delve .
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.