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Fig. 5 | Genome Biology

Fig. 5

From: Structure-primed embedding on the transcription factor manifold enables transparent model architectures for gene regulatory network and latent activity inference

Fig. 5

Single cell PBMC TFA and mTF functional enrichment analysis. TFA and mTFA are estimated from a JRL SupirFactor model. mTFs are associated with latent features \(\hat{\phi }\) and are numbered 0-881. A UMAP projection of the single cell PBMC dataset, labeled with cell type annotations. B Selected enriched terms and associated mTFs for cell-type specific KEGG pathway based on mTF target genes, \(\xi ^{2} > 0.01\) (for mTF 227, phagosome pathway, adjusted p = 0.0081, gene ratio = 0.0309). C Activity of functionally enriched mTFs, over each cell-type. D UMAP projection of PBMCs colored by mTF activation. E Significant TF activation for specific cell-type populations and corresponding gene expression (scaled [0, 1] for comparison). Dot plots of (i) TFA and (ii) TF mRNA expression. Violin plots of (iii) TFA and (iv) TF mRNA expression

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Genome Biology

ISSN: 1474-760X

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