scSCOPE can identify genes with low fold change but extensive interactions as marker genes.
<p>(A) Genes identified as core and secondary by scSCOPE must pass correlation cutoffs, adjusted differential cutoffs, and differential expression cutoffs to be classified as marker genes. (B) Scatter Plot showing the average log2FC of DEGs identified by Wilcox rank sum method for B-cells in g...
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2025
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| Summary: | <p>(A) Genes identified as core and secondary by scSCOPE must pass correlation cutoffs, adjusted differential cutoffs, and differential expression cutoffs to be classified as marker genes. (B) Scatter Plot showing the average log2FC of DEGs identified by Wilcox rank sum method for B-cells in gsBlood dataset. Top marker genes for each cluster are labelled inside a box, indicating their ranking among DEGs from the Wilcoxon analysis. Although Il7r ranks low in terms of average log2FC in B-cells, scSCOPE identifies it as a marker gene in B-cells. (C) The Il7r gene is co-expressed with three core genes identified for B-cells and is also involved in two B-cell pathways. Due to its higher degree of co-expression and involvement in multiple pathways, it ranks higher in the “adjusted differential” metric compared to other genes like Cd74 and Igkc, which have higher fold changes but lower degrees of correlation and pathway involvement.</p> <p>(TIF)</p> |
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