Comparison of single-cell RNA-seq methods to enable transcriptome profiling of neutrophils in clinical samples.

IF 4.5 Q1 BIOCHEMICAL RESEARCH METHODS

Cell Reports Methods Pub Date : 2025-09-15 DOI:10.1016/j.crmeth.2025.101173

Klas Hatje, Kim Schneider, Sabrina Danilin, Fabian Koechl, Nicolas Giroud, Laurent Juglair, Daniel Marbach, Philip Knuckles, Tobias Bergauer, Matteo Metruccio, Alba Garrido, Jitao David Zhang, Marc Sultan, Emma Bell

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Abstract

Monitoring neutrophil gene expression is a powerful tool for understanding disease mechanisms, developing diagnostics, enhancing therapies, and optimizing clinical trials. Neutrophils are sensitive to the processing, storage, and transportation steps that are involved in clinical sample analysis. This study evaluates the capabilities of technologies from 10× Genomics, PARSE Biosciences, and HIVE (Honeycomb Biotechnologies) to generate single-cell RNA sequencing (scRNA-seq) data from human blood-derived neutrophils. Our comparative analysis shows that all methods produced high-quality data, importantly capturing the transcriptomes of neutrophils. Here, we establish a reliable scRNA-seq workflow for neutrophils in clinical trials: we offer guidelines on sample collection to preserve RNA quality and demonstrate how each method performs in capturing sensitive cell populations in clinical practice.

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比较单细胞RNA-seq方法，使临床样品中性粒细胞转录组分析。

监测中性粒细胞基因表达是了解疾病机制、发展诊断、加强治疗和优化临床试验的有力工具。中性粒细胞对临床样品分析中涉及的处理、储存和运输步骤很敏感。本研究评估了10x Genomics、PARSE Biosciences和HIVE （Honeycomb Biotechnologies）的技术从人血源性中性粒细胞中产生单细胞RNA测序（scRNA-seq）数据的能力。我们的比较分析表明，所有方法都产生了高质量的数据，重要的是捕获了中性粒细胞的转录组。在这里，我们为临床试验中的中性粒细胞建立了可靠的scRNA-seq工作流程：我们提供了样品收集指南，以保持RNA质量，并演示了每种方法在临床实践中如何捕获敏感细胞群。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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