Your browser doesn't support javascript.
loading
scBlood: A comprehensive single-cell accessible chromatin database of blood cells.
Zhao, Yu; Yu, Zheng-Min; Cui, Ting; Li, Li-Dong; Li, Yan-Yu; Qian, Feng-Cui; Zhou, Li-Wei; Li, Ye; Fang, Qiao-Li; Huang, Xue-Mei; Zhang, Qin-Yi; Cai, Fu-Hong; Dong, Fu-Juan; Shang, De-Si; Li, Chun-Quan; Wang, Qiu-Yu.
Afiliação
  • Zhao Y; The First Affiliated Hospital & MOE Key Lab of Rare Pediatric Diseases, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.
  • Yu ZM; School of Computer, University of South China, Hengyang, Hunan 421001, China.
  • Cui T; School of Computer, University of South China, Hengyang, Hunan 421001, China.
  • Li LD; The First Affiliated Hospital & MOE Key Lab of Rare Pediatric Diseases, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.
  • Li YY; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.
  • Qian FC; School of Computer, University of South China, Hengyang, Hunan 421001, China.
  • Zhou LW; School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing 163319, China.
  • Li Y; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.
  • Fang QL; State Key Laboratory of Stem Cell and Reproductive Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.
  • Huang XM; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.
  • Zhang QY; School of Computer, University of South China, Hengyang, Hunan 421001, China.
  • Cai FH; School of Computer, University of South China, Hengyang, Hunan 421001, China.
  • Dong FJ; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.
  • Shang DS; School of Computer, University of South China, Hengyang, Hunan 421001, China.
  • Li CQ; School of Computer, University of South China, Hengyang, Hunan 421001, China.
  • Wang QY; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.
Comput Struct Biotechnol J ; 23: 2746-2753, 2024 Dec.
Article em En | MEDLINE | ID: mdl-39050785
ABSTRACT
The advent of single cell transposase-accessible chromatin sequencing (scATAC-seq) technology enables us to explore the genomic characteristics and chromatin accessibility of blood cells at the single-cell level. To fully make sense of the roles and regulatory complexities of blood cells, it is critical to collect and analyze these rapidly accumulating scATAC-seq datasets at a system level. Here, we present scBlood (https//bio.liclab.net/scBlood/), a comprehensive single-cell accessible chromatin database of blood cells. The current version of scBlood catalogs 770,907 blood cells and 452,247 non-blood cells from ∼400 high-quality scATAC-seq samples covering 30 tissues and 21 disease types. All data hosted on scBlood have undergone preprocessing from raw fastq files and multiple standards of quality control. Furthermore, we conducted comprehensive downstream analyses, including multi-sample integration analysis, cell clustering and annotation, differential chromatin accessibility analysis, functional enrichment analysis, co-accessibility analysis, gene activity score calculation, and transcription factor (TF) enrichment analysis. In summary, scBlood provides a user-friendly interface for searching, browsing, analyzing, visualizing, and downloading scATAC-seq data of interest. This platform facilitates insights into the functions and regulatory mechanisms of blood cells, as well as their involvement in blood-related diseases.
Palavras-chave

Texto completo: 1 Base de dados: MEDLINE Idioma: En Ano de publicação: 2024 Tipo de documento: Article

Texto completo: 1 Base de dados: MEDLINE Idioma: En Ano de publicação: 2024 Tipo de documento: Article