CellMarker 2.0: an updated database of manually curated cell markers in human/mouse and web tools based on scRNA-seq data
-
- Congxue Hu
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Tengyue Li
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Yingqi Xu
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Xinxin Zhang
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Feng Li
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Jing Bai
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Jing Chen
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Wenqi Jiang
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Kaiyue Yang
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Qi Ou
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Xia Li
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Peng Wang
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
-
- Yunpeng Zhang
- College of Bioinformatics Science and Technology, Harbin Medical University , Harbin , Heilongjiang 150081, China
抄録
<jats:title>Abstract</jats:title> <jats:p>CellMarker 2.0 (http://bio-bigdata.hrbmu.edu.cn/CellMarker or http://117.50.127.228/CellMarker/) is an updated database that provides a manually curated collection of experimentally supported markers of various cell types in different tissues of human and mouse. In addition, web tools for analyzing single cell sequencing data are described. We have updated CellMarker 2.0 with more data and several new features, including (i) Appending 36 300 tissue-cell type-maker entries, 474 tissues, 1901 cell types and 4566 markers over the previous version. The current release recruits 26 915 cell markers, 2578 cell types and 656 tissues, resulting in a total of 83 361 tissue-cell type-maker entries. (ii) There is new marker information from 48 sequencing technology sources, including 10X Chromium, Smart-Seq2 and Drop-seq, etc. (iii) Adding 29 types of cell markers, including protein-coding gene lncRNA and processed pseudogene, etc. Additionally, six flexible web tools, including cell annotation, cell clustering, cell malignancy, cell differentiation, cell feature and cell communication, were developed to analysis and visualization of single cell sequencing data. CellMarker 2.0 is a valuable resource for exploring markers of various cell types in different tissues of human and mouse.</jats:p>
収録刊行物
-
- Nucleic Acids Research
-
Nucleic Acids Research 51 (D1), D870-D876, 2022-10-27
Oxford University Press (OUP)