Cell type markers
121,515 Marker Gene Sets
  • The marker gene sets for cell types are collected directly from publications describing mainly single-cell, and selected bulk RNA-seq or microarray experiments.
  • Each marker gene set has extensive cell type, anatomical structure and disease annotations as described in the publication.
  • Protein-protein interactions from HitPredict are integrated into CellKb.
  • Reliability scores are calculated for each cell type marker gene set.
  • Consensus signatures are calculated for each cell type in every tissue, disease and condition.
For more details about our data collection and curation methods, please refer to our preprint:
CellKb Immune: a manually curated database of mammalian hematopoietic marker gene sets for rapid cell type identification. biorxiv, 2020.
The CellKb advantage
CellKb provides extensive search capabilities, more data and regular updates compared to other cell type marker databases, in addition to:
  • Manual curation of all data and annotations.
  • Multiple marker gene sets for every cell type with information about publication, disease, tissue and experimental conditions, and reliability scores.
  • Marker gene sets from single-cell and bulk RNA-seq experiments.
  • Canonical markers for cell types.
  • Consensus signatures for every cell type in different tissues and disease conditions.
  • Cell type specific protein-protein interaction networks.
1,686 Publications
Contents
The data contained in the latest version of CellKb is listed below. CellKb Release Notes provides more information about the features released in previous versions.
SpeciesPublicationsSignaturesCell typesTissuesDiseases
Homo sapiens907 579081178 1015602
Mus musculus657 461911030 1034159
Danio rerio69 4616272 29311
Macaca mulatta22 3557141 785
Drosophila melanogaster40 3490153 1365
Macaca fascicularis29 1562259 1677
Rattus norvegicus24 1174170 9713
Caenorhabditis elegans7 112136 522
Callithrix jacchus5 103247 391
Arabidopsis thaliana27 655118 155
Pan troglodytes2 16436 71
Gorilla gorilla1 2422 51
Oryza sativa1 2113 11