Table 1. Selected Go Pathways for gene expression difference between A549 grown in 4D and 2D.

	No. of gene changed	p-value	z-score
Up-regulated in 4D compared to 2D
Cell-Matrix Interaction
Collagen type IV	3	0.0018	5.28
Collagen type V	2	0.0063	5.11
Collagen fibril organization	6	0.0010	4.47
Cell-Cell Interaction
Synapse assembly	7	0.0007	4.53
Actin binding	27	0.0002	4.04
Actomyosin structure organization	3	0.0018	5.28
Sarcomere	5	0.0074	3.43
Actin filament	5	0.0086	3.32
Actin cytoskeleton	13	0.0096	2.79
Cell junction	30	0.0044	2.94
Polarity
Positive regulation of Wnt receptor signaling pathway	4	0.0008	5.31
Proximal/distal pattern formation	5	0.0029	4.03
Notch binding	3	0.0068	4.09
Positive regulation of Notch signaling pathway	3	0.0030	4.80
Basolateral plasma membrane	11	0.0109	2.78
Apicolateral plasma membrane	2	0.0121	4.31
Migration
Ectoderm and mesoderm interaction	2	0.0022	6.41
Positive regulation of filopodium assembly	3	0.0030	4.80
Cell projection	11	0.0042	3.26
Tissue formation
Organ regeneration	6	0.0050	3.52
Prostatic bud formation	2	0.0063	5.11
Tissue regeneration	4	0.0123	3.26
Down-regulated in 4D compared to 2D
Immune response
Innate immune response	19	0.0001	4.40
Positive regulation of NF-kappaB transcription factor activity	11	0.0003	4.51
Positive regulation of chemokine production	5	0.0012	4.52
Immune response	35	0.0016	3.28
Complement activation, classical pathway	10	6.18E-06	6.22