Table 3 Genes differentially expressed in Du/CAF (DuCaP co-cultured with CAFs) and LN/CAF (LNCaP co-cultured with CAFs) compared to DuCaP and LNCaP monoculture spheroids

SERPINA3

87.87

9.26

Serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin)

CFB

87.73

7.24

Complement factor B

FGL1

21.10

6.70

Fibrinogen-like 1 (FGL1)

PLA2G2A

20.41

2.83

Phospholipase A2, group IIA (platelets, synovial fluid)

HMGCS2

19.79

5.43

3-hydroxy-3-methylglutaryl-Coenzyme A synthase 2 (mitochondrial)

HLA-DRA

14.19

2.50

Major histocompatibility complex, class II, DR alpha

COL6A3

11.12

2.81

Collagen, type VI, alpha 3

IL32

11.07

3.80

interleukin 32 (IL32), transcript variant 4, mRNA.

TGFBI

10.72

3.04

Transforming growth factor, beta-induced, 68 kDa

IRF1

9.80

2.73

Interferon regulatory factor 1

TAPBP

9.45

2.88

TAP binding protein (tapasin)

SCNN1A

9.06

2.14

Sodium channel, nonvoltage-gated 1 alpha

MMP7

8.97

2.57

Matrix metallopeptidase 7 (matrilysin, uterine)

STAT3

8.90

3.05

Signal transducer and activator of transcription 3 (acute-phase response factor)

TAP1

5.08

2.41

Transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)

JUNB

4.81

2.19

Jun B proto-oncogene

COL3A1

4.62

2.09

Collagen, type III, alpha 1

MALL

4.43

2.81

Mal, T-cell differentiation protein-like

DDR1

4.15

2.05

Discoidin domain receptor tyrosine kinase 1

CPB1

3.78

2.88

Carboxypeptidase B1 (tissue)

CGN

3.60

2.21

Cingulin

GRHL2

3.46

2.46

Grainyhead-like 2 (Drosophila)

CD276

3.34

2.22

CD276 molecule

CYP2J2

3.31

2.59

Cytochrome P450, family 2, subfamily J, polypeptide 2

GPER

3.24

2.60

G protein-coupled estrogen receptor 1

GRINA

3.23

2.28

Glutamate receptor, ionotropic, N-methyl D-aspartate-associated protein 1 (glutamate binding)

UBE1

3.09

2.26

Ubiquitin-activating enzyme E1

VWA1

3.06

2.01

von Willebrand factor A domain containing 1

NFKB1

3.04

2.30

Nuclear factor of kappa light polypeptide gene enhancer in B-cells 1

HIPK2

2.92

2.09

Homeodomain interacting protein kinase 2

ATP1A1

2.85

2.60

ATPase, Na+/K+ transporting, alpha 1 polypeptide

ABCC5

2.80

2.09

ATP-binding cassette, sub-family C (CFTR/MRP), member 5

EIF4G1

2.78

2.74

Eukaryotic translation initiation factor 4 gamma, 1

TMEM79

2.74

2.32

Transmembrane protein 79

FRMD8

2.74

2.08

FERM domain containing 8

ALDH3B2

2.73

2.29

Aldehyde dehydrogenase 3 family, member B2

ANKFY1

2.71

2.08

Ankyrin repeat and FYVE domain containing 1

MAP 1B

2.62

2.51

Microtubule-associated protein 1B

LRG1

2.60

2.07

Leucine-rich alpha-2-glycoprotein 1

MYH9

2.54

2.02

Myosin, heavy chain 9, non-muscle

DHCR24

2.54

2.35

24-dehydrocholesterol reductase

CANT1

2.49

2.06

Calcium activated nucleotidase 1

UBA1

2.43

2.09

Tubulin, alpha 1a

IDH2

2.42

2.40

Isocitrate dehydrogenase 2 (NADP+) mitochondrial, nuclear gene encoding mitochondrial protein

RTN1

2.38

2.03

Reticulon 1

DHCR7

2.31

2.23

7-dehydrocholesterol reductase

VCP

2.31

2.52

Valosin-containing protein

MVP

2.23

2.05

Major vault protein

PROM2

2.19

2.21

Prominin 2

DTX2

2.16

2.11

Deltex homolog 2 (Drosophila)

UBE2G1

2.11

2.01

Ubiquitin-conjugating enzyme E2G 1 (UBC7 homolog, yeast)

DYNC1H1

2.11

2.30

Dynein, cytoplasmic 1, heavy chain 1

TPR

2.08

2.12

Translocated promoter region (to activated MET oncogene)

TGFBR3

2.08

3.76

Transforming growth factor, beta receptor III

EIF2C2

2.08

2.02

Eukaryotic translation initiation factor 2C, 2

EPHX1

2.07

2.60

Epoxide hydrolase 1, microsomal (xenobiotic)

PLEKHF1

2.06

2.48

Pleckstrin homology domain containing, family F (with FYVE domain) member 1