is a Data Source.
CellMarker is a comprehensive and accurate resource of cell markers for various cell types in tissues of human and mouse. CellMarker 2.0 provides a manually curated collection of 26,915 markers across 2,578 cell types and 656 tissues, resulting in 83,361 tissue-cell type-marker entries, and includes integrated web tools for single-cell data analysis.
biomedical, genomics, biological systems, organisms
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| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| cellmarker.human | Human Cell Markers | Cell_marker_Human.xlsx (7.6 MB) | Product | ❔ | Human CellMarker 2.0 marker dataset i... |
| cellmarker.mouse | Mouse Cell Markers | Cell_marker_Mouse.xlsx (3.6 MB) | Product | ❔ | Mouse CellMarker 2.0 marker dataset i... |
| cellmarker.singlecell | Single Cell Markers | Cell_marker_Seq.xlsx (5.7 MB) | Product | ❔ | CellMarker 2.0 marker dataset derived... |
| cellmarker.all | All Cell Markers | Cell_marker_All.xlsx (9.5 MB) | Product | ❔ | Combined CellMarker 2.0 marker datase... |
| cellmarker.act | Cell Annotation Tool | CellMarker_annotation.jsp | GraphicalInterface | http | CellMarker 2.0 annotation tool for as... |
| ID | Name | URL | Category | Format | Relation | Description |
|---|---|---|---|---|---|---|
| indra.cogex.code | INDRA CoGEx Build Code | indra_cogex | ProcessProduct | ❔ | had primary source | INDRA CoGEx is a graph database integ... |
CellMarker is a curated resource of marker genes for cell types across human and mouse tissues. The current CellMarker 2.0 release expands the original database and adds integrated web tools for single-cell analysis workflows.
CellMarker 2.0 reports:
The database provides browsing, search, download, and analysis interfaces for markers of diverse cell types from different tissues. It also captures sequencing technology, marker type, and related metadata for each curated entry.
Users can:
CellMarker 2.0 includes integrated tools for cell annotation, clustering, malignancy analysis, differentiation, feature inspection, and cell-cell communication analysis based on single-cell datasets and the curated CellMarker resource.
Created: July 20, 2025 | Last modified: May 23, 2026