Table 1.

Altered genes in 2D and 3D co-culture of HNSCC cells with CAFs. Only the top 20 genes listed from the 3D experiment.

Gene ID	Log2 Fold Change 2D	Gene ID	Log2 Fold Change 3D	Gene ID	Log2 Fold Change 2D	Gene ID	Log2 Fold Change 3D
POSTN	↑ 12.5	MMP1	↑ 152.95	GBP4	↓ −3.12	IVL	↓ −20.64
GREM1	↑ 4.07	MMP9	↑ 49.34	KLK6	↓ −2.7	CNFN	↓ −18.34
COL1A1	↑ 2.46	BGN	↑ 41.26	KLK7	↓ −2.65	KRT1	↓ −16.61
COL1A2	↑ 2.39	COL6A3	↑ 28	SPRR2A	↓ −2.6	DSG1	↓ −13.48
COL6A3	↑ 2.17	POSTN	↑ 27.84	FYB	↓ −2.55	KRT10	↓ −12.64
BGN	↑ 2.08	TNC	↑ 17.97	GABRP	↓ −2.54	MUC15	↓ −10.81
OR4N2	↑ 2	COL1A2	↑ 12.94	ADGRF4	↓ −2.51	SPINK5	↓ −9.66
ID1	↑ 2	IGFBP5	↑ 12.65	IDO1	↓ −2.45	RPTN	↓ −9.35
		FMOD	↑ 11.36	CLDN4	↓ −2.44	CLCA4	↓ −8.91
		PDGFRB	↑ 10.98	GBP6	↓ −2.44	SDR9C7	↓ −8.53
		COL1A1	↑ 10.91	KRT15	↓ −2.36	SPINK7	↓ −8.1
		DCN	↑ 10.18	LIPH	↓ −2.35	LIPK	↓ −7.95
		HAS2	↑ 9.07	CLDN8	↓ −2.34	FOXN1	↓ −7.53
		EDNRA	↑ 8.77	MMP7	↓ −2.33	BNIPL	↓ −6.93
		THBS1	↑ 7.51	SYTL2	↓ −2.32	SCEL	↓ −6.66
		GREM1	↑ 6.67	CRABP2	↓ −2.31	SPRR1A	↓ −6.52
		AMTN	↑ 6.39	FRK	↓ −2.3	CES1	↓ −5.43
		SPARC	↑ 6.19	TMPRSS4	↓ −2.27	MIR203A	↓ −5.06
		EMP3	↑ 5.51	CYP4F3	↓ −2.19	OCLN	↓ −4.45
		CTSK	↑ 3.84	TLR6	↓ −2.16	KLK10	↓ −4.15

↑ upregulated, ↓ downregulated.