Navigating single-cell RNA-sequencing: protocols, tools, databases, and applications

被引：1

作者：

Ankish Arya ^{[1
]}

Prabhat Tripathi ^{[1
]}

Nidhi Dubey ^{[1
]}

Imlimaong Aier ^{[1
]}

Pritish Kumar Varadwaj ^{[1
]}

机构：

[1] Department of Applied Sciences, Indian Institute of Information Technology Allahabad, Jhalwa, Uttar Pradesh, Prayagraj

来源：

Genomics & Informatics | / 23卷 / 1期

关键词：

Cellular heterogeneity; Databases; Drug discovery; Protocols and tools; Single-cell RNA sequencing;

D O I：

10.1186/s44342-025-00044-5

中图分类号：

学科分类号：

摘要：

Single-cell RNA-sequencing (scRNA-seq) technology brought about a revolutionary change in the transcriptomic world, paving the way for comprehensive analysis of cellular heterogeneity in complex biological systems. It enabled researchers to see how different cells behaved at single-cell levels, providing new insights into the process. However, despite all these advancements, scRNA-seq also experiences challenges related to the complexity of data analysis, interpretation, and multi-omics data integration. In this review, these complications were discussed in detail, directly pointing at the optimization of scRNA-seq approaches and understanding the world of single-cell and its dynamics. Different protocols and currently functional single-cell databases were also covered. This review highlights different tools for the analysis of scRNA-seq and their methodologies, emphasizing innovative techniques that enhance resolution and accuracy at a single-cell level. Various applications were explored across domains including drug discovery, tumor microenvironment (TME), biomarker discovery, and microbial profiling, and case studies were discussed to explain the importance of scRNA-seq by uncovering novel and rare cell types and their identification. This review underlines a crucial aspect of scRNA-seq in the advancement of personalized medicine and highlights its potential to understand the complexity of biological systems. © The Author(s) 2025.

引用

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