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This article is to share with you about the online analysis of scRNA-seq data PanglaoDB website is how, the editor feels very practical, so share with you to learn, I hope you can learn something after reading this article, say no more, follow the editor to have a look.

The best way to describe single-cell technology with four words should be "fire inflammation".

Researchers from Sweden and the United States have developed the PanglaoDB database, a website for exploring mouse and human scRNA-seq data, which provides the latest public scRNA-seq data resources for single-cell genomics research.

The PanglaoDB database, which contains preprocessing and precomputing analyses of more than 1054 single-cell experiments, covers most of the major single-cell platforms and analysis processes, based on more than 4 million cells from a variety of tissues and organs. The online interface allows users to query and explore cell types, genetic pathways and regulatory networks.

Why build PanglaoDB?

Overview of PanglaoDB database and function

What can PanglaoDB do?

Example of search function

Browsing function

Q: I want to know the subtypes of cells in the pulmonary interstitium of mice.

A: click "Datasets" on the main menu, and then click "Samples", you can add restrictions: species, sequencing platform or header order, get the search list, click "view" to view the basic information of the data set and the cell cluster diagram of the data set, use t-SNE/UMAP for dimensionality reduction visualization, different colors represent different clusters.

Sample browsing function (Samples)

Q: how do I check the cellular marker of a cell subgroup?

A: click "Datasets" on the main menu, then click "Cell type markers", select the cell type, you can get the marker list of gene expression of the cell type, and the green line represents the typical marker. If you find that the cell type marking is not accurate, you can send an error report through the flag button.

Sample browsing function (Cell type markers)

Data download

Users can download data in bulk on the Bulk data download page.

Bulk data download page

Users can also analyze their own data using alona tools deployed on the database.

The above is what the PanglaoDB website for online analysis of scRNA-seq data is like. The editor believes that there are some knowledge points that we may see or use in our daily work. I hope you can learn more from this article. For more details, please follow the industry information channel.

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