GCNG: graph convolutional networks for inferring gene interaction from spatial transcriptomics data

Table 1 Top predicted genes for cell communication-related GSEA functional sets

Cell communication
scara3	Scara3 can be translocated to cell surface [31].
thbs1	Thbs1 is an extracellular matrix protein involved in cellular interactions [32].
serpine1	Serpine1 regulates cell migration using receptor-mediated adhesion [33].
ccdc144nl	Ccdc144nl is a protein located in the plasma membrane [34]. See https://www.proteinatlas.org/ENSG00000205212-CCDC144NL/cell for location details. And lncRNA CCDC144NL-AS1 can regulate cell migration [35].
mdm2	Mdm2 relocates to cell membrane during acute kidney injury-chronic kidney disease [36].
Integrin cell surface interactions
ctgf	Ctgf can regulate cell-matrix interaction by binding to cell surface proteins [37].
serpinh1	Serpinh1 can promote cancer cell–platelet interaction [38].
lbr
plod1
lamc1	LAMC1 encodes extracellular matrix protein, and regulates cell adhesion, invasion and migration [39].
Cell surface interactions at the vascular wall
serpine1	Serpine1 regulates cell migration using receptor-mediated adhesion [33].
ctgf	Ctgf can regulate cell-matrix interaction by binding to cell surface proteins [37].
serpinh1	Serpinh1 can promote cancer cell–platelet interaction [38].
loxl2	LOXL2 can modulate focal adhesion and tight junction in breast cancer cells [40].
pcolce	Pcolce encodes protein as component of extracellular matrix involved in cellular interactions [41].

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