Article

Amaranth: Enhanced Single-Cell Transcript Assembly via Discriminative Modeling of UMI Reads and Internal Reads

2025-11-27

Abstract excerpt

<h4>Motivation</h4> Single-cell RNA sequencing has transformed transcriptome profiling at cellular resolution, yet accurate reconstruction of full-length transcripts for individual cells remains a central challenge. Emerging scRNA-seq protocols can produce reads that span entire transcripts, enabling isoform-level expression analysis. For example, Smart-seq protocols combine UMI-linked reads that index and stitch...

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Literature Corpus work: d5fde4e7-4457-5203-aff0-a348fa798578
DOI: 10.1101/2025.11.24.690228

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