Article

WATER: A Framework for Reconstructing Temporal Gene Expression Trajectories and Detecting Molecular Heterochrony Across Development and Disease

2026-07-16

Abstract excerpt

<title>Abstract</title> <p>Temporal RNA-seq is widely used to study development and disease, yet many analytical approaches compare stage-matched samples, assuming temporal equivalence between conditions and limiting measurement of gene expression program reorganization. We introduce WATER (Windowed Assignment of Temporal Expression of RNA), a framework that reconstructs temporal gene expression trajectories inde...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 15192c9a-5196-51dd-94c0-2263e2831c93
DOI: 10.21203/rs.3.rs-10348246/v1

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

WATER: A Framework for Reconstructing Temporal Gene Expression Trajectories and Detecting Molecular Heterochrony Across Development and DiseaseDOI 10.21203/rs.3.rs-10348246/v1Read

Unraveling the timeline of gene expression: A pseudotemporal trajectory analysis of single-cell RNA sequencing dataSemantic proximity Read

Unraveling the timeline of gene expression: a pseudo-temporal trajectory analysis of single-cell RNA sequencing dataSemantic proximity Read

Coordinated changes in gene expression kinetics underlie both mouse and human erythroid maturationSemantic proximity Read

Coordinated Changes in Gene Expression Kinetics Underlie both Mouse and Human Erythroid MaturationSemantic proximity Read

A unified analysis of cell-type and trajectory-associated pathways in single-cell data using PhoenixSemantic proximity Read

Canonical Analysis of Fluorescent Timer-Anchored Transcriptomes Resolves Joint Temporal and Developmental ProgressionSemantic proximity Read

Coexpression enables multi-study cellular trajectories of development and diseaseSemantic proximity Read

Experimental Time Points Guided Transcriptomic Velocity InferenceSemantic proximity Read

stLearn: integrating spatial location, tissue morphology and gene expression to find cell types, cell-cell interactions and spatial trajectories within undissociated tissuesSemantic proximity Read

The ENCODE mouse postnatal developmental time course identifies regulatory programs of cell types and cell statesSemantic proximity Read

Whole-genome single-cell multimodal history tracing to reveal cell identity transitionSemantic proximity Read

scTrends: automated classification and strength quantification of gene expression trends along pseudotime in single-cell RNA-seqSemantic proximity Read