Differential expression of genes during aflatoxin B1-induced hepatocarcinogenesis in tree shrews

Table 3 Four types of differentially expressed genes

Type I, genes that up-regulated both in HCC vs NCL and NCL vs BC. Modulators, effectors & intracellular transducers

neurotrophic tyrosine kinase receptor-related 3

cAMP-dependent protein kinase type I beta regulatory

subunit (PRKAR1B)

Type II, genes that had similar expressing level in HCC and NCL but higher than that in BC.

II-1. Modulators, effectors & intracellular transducers

thrombin receptor (TR)

epidermal growth factor receptor substrate 15 (EPS15)

II-2. Transcription factors & DNA-bingding proteins

SWI/SNF-related matrix-associated actin-dependent

regulator of chromatin subfamily A member 2 (SMARCA2)

octamer-binding transcription factor 2 (OCT2)

mitochondrial transcription factor 1 (MTTF1)

transcriptional repressor protein yin & yang 1 (YY1)

nucleobindin 1 (NUCB1)

II-3. Growth factor & chemokine receptors

endothelin receptor type B ( ETB)

II-4. Cell surface antigens & adhesion proteins

myeloid cell surface CD33 antigen

II-5. Growth factors, cytokines & chemokines

hepatocyte growth factor-like protein

Type III, genes down-regulated in HCC vs NCL.

III-1. Apoptosis-associated proteins

p53 cellular tumor antigen

TNF-related activation protein (TRAP)

N-myc proto-oncogene

receptor (TNFRSF)-interacting serine-threonine kinase 1 (RIPK1)

tumor necrosis factor C (TNFC)

NIP1 (NIP1)

BCL2/adenovirus E1B 19-kDa-interacting protein 3 (BNIP3)

BCL2 homologous antagonist/killer 1 (BAK1)

inhibitor of apoptosis protein 3 (IAP3)

WSL protein + TRAMP + Apo-3 + death domain receptor 3 (DDR3)

cysteine protease ICE-LAP3

III-2. DNA synthesis, repair & recombination proteins

nuclear factor IV

xeroderma pigmentosum group B complementing

protein (XPB; ERCC3)

70-kDa thyroid autoantigen (TLAA)

replication protein A 70-kDa subunit (RPA70)

excision repair cross-complementing rodent repair deficiency

complementation group 1 (ERCC1)

colon cancer nonpolyposis type 2 protein (COCA2)

UV excision repair protein RAD23 homolog B (hHR23B; XPC repair-complementing complex 58-kDa protein)

DNA damage-inducible protein 153 (GADD153)

DNA damage repair & recombination protein 50 homolog (RAD50)

III-3. Growth factors, cytokines & chemokines

thrombomodulin (THBD)

hepatoma-derived growth factor (HDGF)

T-cell activation protein 2 (AT2)

neuroleukin (NLK)

neuregulin 1 (NRG1)

bone morphogenetic protein 3 (BMP3)

small inducible cytokine subfamily A member 2 (SCYA2)

hepatocyte growth factor (HGF)

calgranulin A (CALA)

AFGF + HBGF-1 + ECGF-beta

III-4. Interleukins & interferons

interleukin 2 (IL2)

interleukin 1 alpha (IL1-alpha)

interleukin 4 (IL4)

interferon beta 1 (IFN-beta 1)

interleukin 12 beta subunit (IL12-beta)

interleukin 12 alpha subunit (IL12-alpha)

III-5. Hormones

insulin-like growth factor-binding protein 3 ( IGFBP3)

Type IV, genes up-regulated before HCC appearance but down-regu-lated after HCC developed.

IV-1. DNA synthesis, repair & recombination proteins

replication factor C 36-kDa subunit (RFC36)

DNA topoisomerase II alpha (TOP2A)

DNA damage repair & recombination protein 52 homolog (RAD52)

DNA ligase III (LIG3)

muscle-specific DNase I-like ( DNL1L)

IV-2. Growth factors, cytokines & chemokines

granulocyte colony-stimulating factor (GCSF)

heregulin-beta3

thrombopoietin (THPO)

connective tissue growth factor (CTGF)

IV-3. Interleukins & interferons

interleukin 7 (IL7)

interleukin 3 (IL3)

interleukin 6 (IL6)

interleukin 11 (IL11)

IV-4. Hormones

cellular retinoic acid-binding protein II (CRABP2)

corticotropin-releasing factor-binding protein