|Cell type||#Species||#Tissues||#Conditions||#Cell markers||#Publications|
|Cell Taxonomy ID||Cell type||Cell Ontology ID||Tissue ID||Tissue|
|Species||Tissue||Tissue ID||Condition||Disease ID||Cell marker||Source||PMID|
|Cell marker||No. of total samples (E)||No. of highly expressed samples (HE, FDR<0.05)||Highly expressed ratio (HE/E)|
The expression percentage of this gene in this cell type
The expression percentage of this gene in other cell types
Cell specificity score
Jensen-Shannon (JS) divergence score (0-1) is calculated to quantify the cell type specificity of one cell marker (Cabili MN et al., 2011 ).
|Cell marker||No. of publications||
The FDR is calculated by fisher’s exact test to see if this cell marker is specifically associated with this cell type by publication.
|Species in comparison||Tissue||
Cell-type similarity across species
The cell-type similarity across species is evaluated by the number of orthologous cell markers divided by the union of cell markers in the two species
|No. of orthologous cell markers|
|Cell marker||Species (ortholog)||Ortholog||Gene ID (ortholog)||No. of publications (ortholog cell markers)|
|Species||Tissue||Cell type in comparison||
Marker similarity score
The similarity score (0-1) is calculated between two cell types by the number of common markers normalized by union of marker set sizes. One represents the same marker sets of two cell types and zero means the two cell types share no common markers.
|Species||Accession number||Sample||PMID||Cell number||
ROGUE is calculated to accurately quantify the purity of identified cell clusters. A ROGUE value greater than 0.9 indicates a cell cluster with high purity.
The Silhouette coefficient ranges from -1 to 1, and 1 means clusters are well apart from each other, 0 means clusters are indifferent, and -1 means clusters are defined in the wrong way.
Average ROGUE index
Mean ROGUE index of all cell clusters in the sample.
Average silhouette coefficient
Mean silhouette coefficient of all cell clusters in the sample.