Fig. 2: Analysis of gene embedding generated from GeneCompass. | Cell Research

Fig. 2: Analysis of gene embedding generated from GeneCompass.

From: GeneCompass: deciphering universal gene regulatory mechanisms with a knowledge-informed cross-species foundation model

Fig. 2

a Cosine similarity between homologous genes as well as non-homologous ones of different species (left panel), and that between different genes in the same mouse or human cell (right panel). b, c Effects of in silico deletion of GATA4 and TBX5 on different gene types, including their direct targets, indirect targets, NOTCH1 targets, NKX2-5 targets and housekeeping genes in human cardiomyocytes, respectively. d Effects of the individual and combined deletion of GATA4 and TBX5 as well as their combinatorial deletion with other genes that are not known to co-bind housekeeping genes and target genes in humans. e, f Effects of in silico deletion of GATA4 and TBX5 on different gene types, including their direct targets, indirect targets, NOTCH1 targets, NKX2-5 targets and housekeeping genes in mice which are obtained by homologous mapping. g Effects of the combined deletion of GATA4 and TBX5 on housekeeping genes and co-bound target genes in mice. (*P < 0.05, wilcoxon-test, NS no significance).

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