MSdb：人类肌肉骨骼系统的综合表达图谱。

MSdb: An integrated expression atlas of human musculoskeletal system.

作者信息

Tian Ruonan, Xue Ziwei, Ruan Dengfeng, Chen Pengwei, Xu Yiwen, Dai Chao, Shen Weiliang, Ouyang Hongwei, Liu Wanlu, Lin Junxin

机构信息

Zhejiang University-University of Edinburgh Institute, Zhejiang University School of Medicine, Hangzhou, Zhejiang 310058, China.

Future Health Laboratory, Innovation Center of Yangtze River Delta, Zhejiang University, Jiaxing, Zhejiang 314100, China.

出版信息

iScience. 2023 May 18;26(6):106933. doi: 10.1016/j.isci.2023.106933. eCollection 2023 Jun 16.

DOI:10.1016/j.isci.2023.106933

PMID:37378342

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10291471/

Abstract

The global prevalence and burden of musculoskeletal (MSK) disorders are immense. Advancements in next-generation sequencing (NGS) have generated vast amounts of data, accelerating the research of pathological mechanisms and the development of therapeutic approaches for MSK disorders. However, scattered datasets across various repositories complicate uniform analysis and comparison. Here, we introduce MSdb, a database for visualization and integrated analysis of next-generation sequencing data from human musculoskeletal system, along with manually curated patient phenotype data. MSdb provides various types of analysis, including sample-level browsing of metadata information, gene/miRNA expression, and single-cell RNA-seq dataset. In addition, MSdb also allows integrated analysis for cross-samples and cross-omics analysis, including customized differentially expressed gene/microRNA analysis, microRNA-gene network, scRNA-seq cross-sample/disease integration, and gene regulatory network analysis. Overall, systematic categorizing, standardized processing, and freely accessible knowledge features MSdb a valuable resource for MSK research community.

摘要

肌肉骨骼（MSK）疾病的全球患病率和负担巨大。下一代测序（NGS）技术的进步产生了大量数据，加速了MSK疾病病理机制的研究和治疗方法的开发。然而，各个存储库中分散的数据集使得统一分析和比较变得复杂。在此，我们介绍MSdb，这是一个用于可视化和综合分析来自人类肌肉骨骼系统的下一代测序数据以及人工整理的患者表型数据的数据库。MSdb提供各种类型的分析，包括元数据信息的样本级浏览、基因/miRNA表达以及单细胞RNA测序数据集。此外，MSdb还允许进行跨样本综合分析和跨组学分析，包括定制的差异表达基因/微RNA分析、微RNA-基因网络、scRNA-seq跨样本/疾病整合以及基因调控网络分析。总体而言，系统分类、标准化处理以及免费获取的知识特性使MSdb成为MSK研究社区的宝贵资源。