Table 1 RNAs targeted in the GastroGenus v1™ panel

Gastric cancer specific RNAs and gastrin signalling factors

REG4

Cell regeneration and growth

NM_032044.3

OLFM4

Tumor growth & cell adhesion, olfactomedin

NM_006418.3

DKK4

Embryonic development

NM_014420.2

ODAM

APin

Enamel mineralization

NM_017855

CSAG2

Drug resistance

NM_001080848.2

MIA

Growth inhibition

NM_006533.2

CYP2W1

Drug metabolism, cytochrome p450

NM_017781.2

HORMAD1

Cell cycle regulation

NM_032132.3

MMP10

Matrix metallopeptidase, remodeling

NM_002425.2

FUS

mRNA/miRNA processing

NM_004960

CLDN18

Tight junction component, claudin

NM_001002026

SERPINH1

Collagen synthesis, peptidase inhibitor, heat shock

NM_004353

THY1

Control of inflammatory cell recruitment

NM_006288

INHBA

Inhibin, inhibits hormone secretion and cell growth

NM_002192

CXCL1

Immune development and homeostasis, chemokine

NM_001511

SPARC

osteonectin

Protects from apoptosis, docetaxel response

NM_003118

SPP1

Osteogenesis, secreted phosphoprotein

NM_000582

SULF1

Cell signaling, sulfatase

NM_015170

COL1A1

Type I collagen component

NM_000088

COL1A2

Type I collagen component

NM_000089

COL3A1

Type III collagen component

NM_000090

CDH1

E-Cadherin

Cell adhesion, mutated in heritable gastric cancer

NM_004360

EPCAM

Epithelial cell adhesion

NM_002354

GAST

Stimulates stomach acid secretion

NM_000805

CDH17

Peptide transporter, gastrin signalling

NM_004063.3

CHGA

Neuroendocrine cell, gastrin signalling

NM_001275

PTGS2

COX2

Prostaglandin synthesis, gastrin signaling, druggable

NM_000963.1

MYC

Cell cycle regulator, gastrin signalling

NM_002467.3

CCND1

BCL1

cell cycle regulator, gastrin signalling

NM_053056.2

EBV-related inflammatory response genes and NFKB signaling factors

PLUNC

Gastric and nasopharyngeal carcinoma

NM_130852.2

MET

Receptor tyrosine kinase, ongogene, drug target

NM_000245.2

BACH1

Transcription factor

NM_206866

BBC3

PUMA

p53 target, pro-apoptotic target of EBV mir-BART5

NM_014417

CXCL11

Leukocyte trafficking, target of EBV mir-BHRF1-3

NM_005409

CDKN1A

P21, WAF1

Cyclin-dependent kinase inhibitor, EBV miR target

NM_000389.2

FCRL3

Immune regulation, Fc receptor-like tyrosine kinase

NM_052939

CD70

T and NK cell activation, TNF ligand

NM_001252

FSCN1

Cell morphology and motility

NM_003088

TNFSF9

Antigen (Ag) processing, TNF ligand cytokine

NM_003811

BCL2L11

BIM

Activator of apoptosis, BCL2-like

NM_006538

PTEN

Tumor suppressor, EBV miR target

NM_000314.3

PCNA

DNA replication and repair, cell proliferation indicator

NM_182649.1

GPR183

G protein-coupled receptor, EBV-induced

NM_004951

MX1

Mediates antiviral response, interferon response

NM_001144925

IFITM1

Innate antiviral and interferon response

NM_003641

FCGR2B

Phagocytosis & antibody production

NM_004001

ICAM1

NFKB regulated, cell adhesion

NM_000201.2

TRAF1

NFKB regulated, TNF receptor

NM_005658.3

FCER2

CD23

NFKB-regulated B cell differentiation, IgE receptor

NM_002002.4

IL10

Anti-inflammatory cytokine regulates NFKB signalling

NM_000572.2

Hematopoietic cell markers

PTPRC

CD45

Pan-hematopoietic cell marker, T & B cell signaling

NM_002838

MS4A1

CD20

B cell marker, differentiation

NM_021950

IGLL1

CD179B

B cell marker, growth

NM_020070

BANK1

B-cell marker, receptor-induced calcium mobilization

NM_017935

FAM129C

B cell marker

NM_173544

MUM1

IRF4

Late stage B cell, signaling & differentiation

NM_032853

SDC1

CD138

Plasma cell, also epithelial cell binding and signaling

NM_001006946

CD4

Helper T cells, MHC class II antigen processing

NM_000616.3

CD8A

Suppressor T cells, MHC class I antigen processing

NM_001768

CD3G

--

Pan T cell marker, intracellular signaling

NM_000073

GPR56

NK cell marker in peripheral tissues

NG_011643.1

Pharmacogenetic factors impacting drug response

ERBB2

HER2

Kinase-mediated signaling, trastuzumab target

NM_004448.2

PPARG

Glucose and lipid metabolism

NM_138711.3

TYMS

Thymidylate synthase, DNA repair, 5FU response

NM_001071.2

HIF1A

Systemic response to hypoxia

NM_001530.2

EPAS1

Angiogenesis

NM_001430

VEGFA

Mitogen for endothelial cells

NM_001025366

SLC2A3

GLUT3

Glucose transporter

NM_006931.2

SLC2A1

GLUT1

Glucose transporter

NM_006516.2

Epstein-Barr virus (EBV) RNAs:

NC_007605.1

LMP1

BNLF1

TNF/CD40 signalling, latent phase

3783750

LMP2A

Cell survival , latent phase

3783751

EBNA1

BKRF1

Viral persistence, episome, latent phase

3783709

EBNA1,QUK

Q promoter variant, viral persistence, latent phase

3783774

EBNA2

BYRF1

Transactivator, latent phase

3783761

EBNA3A

BERF1

Immortalization, latent phase

3783762

EBNA-LP

Transactivator, latent phase

3783746

EBER1

Non-coding RNA inhibits apoptosis, latent phase

AJ507799.2 - 6629.6795

EBER2

Non-coding RNA inhibits apoptosis, latent phase

AJ507799.2 - 6956.7128

BZLF1

Zta, Zebra

Immediate early transactivator of lytic replication

3783744

BMRF1

Early lytic DNA polymerase processivity factor, TF

3783718

BHRF1

Viral BCL2 inhibits apoptosis, early lytic phase

3783706

BCRF1

Viral interleukin 10 homologue

3783689

BARF1

Soluble CSF1 receptor homologue, early lytic phase

3783772

BRLF1

Rta

Immediate early transactivator of lytic replication

3783727

BLLF1

gp350/220

Viral entry via CD21 receptor, late lytic phase

3783713

BALF5

Viral DNA polymerase, early lytic phase

3783681

BXLF1

Thymidine kinase, early lytic phase

3783741

Human cytomegalovirus (CMV) RNAs:

NC_006273.2

UL83

pp65

Late lytic phase

3077579

UL54

pol

CMV DNA polymerase, early lytic phase

3077501

Housekeeper RNAs

CLTC

Intracellular trafficking & endocytosis

NM_004859.2

GUSB

Glucuronidase degrades glycosaminoglycans

NM_000181.1

TBP

Transcription initiation by TATA box binding protein

NM_003194.3

HPRT1

Generation of purine nucleotides

NM_000194.1