Table 1. 30 most significant gene regulations.

A549 3D vs 2D culture			Colo699 3D vs 2D culture
Gene	FDR	log2FC	Gene	FDR	log2FC
CEACAM5	< 0.001	6,60	ADCY8	< 0.001	4,30
BPIFB1	< 0.001	6,30	CLEC1A	< 0.001	4,10
BPIFA1	< 0.001	6,10	C12orf39	< 0.001	3,70
CATSPERB	< 0.001	5,50	TENM2	< 0.001	3,50
FCGBP	< 0.001	5,30	LINC00277	< 0.001	3,40
F5	< 0.001	4,90	RIMS1	< 0.001	3,40
TCN1	< 0.001	4,80	RP11–809H16.5	< 0.001	3,40
TSPAN1	< 0.001	4,60	TPD52L1	< 0.001	3,30
CEACAM6	< 0.001	4,50	METTL7A	< 0.001	3,20
NOX1	< 0.001	4,50	ST8SIA1	< 0.001	3,10
ADH6	< 0.001	4,40	OCLN	< 0.001	3,10
UGT2B15	< 0.001	4,30	SLC6A20	< 0.001	3,10
LYZ	< 0.001	4,30	CD96	< 0.001	3,10
AQP3	< 0.001	4,20	MRGPRX3	< 0.001	3,00
CST1	< 0.001	4,10	ASS1	< 0.001	3,00
AGR3	< 0.001	4,00	COLEC12	< 0.001	2,90
GRHL3	< 0.001	4,00	IGF1	< 0.001	−3,80
LAMA4	< 0.001	3,80	MAP7D2	< 0.001	−3,60
FER1L6	< 0.001	3,80	OR4A16	< 0.001	−3,50
KCNJ2	< 0.001	3,70	GPR56	< 0.001	−3,50
ITIH2	< 0.001	3,70	SPP1	< 0.001	−3,50
C9orf152	< 0.001	3,60	MLPH	< 0.001	−3,40
TM4SF4	< 0.001	3,60	U1	< 0.001	−3,20
GDA	< 0.001	3,50	STON2	< 0.001	−3,10
IL33	< 0.001	3,50	PCDH17	< 0.001	−3,00
CFB	< 0.001	3,50	GALNT3	< 0.001	−3,00
CDCP1	< 0.001	−3,20	ARHGAP28	< 0.001	−3,00
GREM1	< 0.001	−3,50	LMO3	< 0.001	−2,90
FAM129A	< 0.001	−3,50	SULF1	< 0.001	−2,90
LOXL2	< 0.001	−4,20	CMKLR1	< 0.001	−2,90

The table lists the 30 most affected genes by 3D versus 2D cell cultivation for A549 and Colo699 (red: up-regulated, blue: down-regulated)

FDR is false discovery rate as used for the multiple testing correction of p-values according to the Benjamini Hochberg method; log2FC is log2 fold change.