Table 3. A significant number of genes associated with poor prognosis in human melanoma were also concordant in B16F10L tumors from A-I KO mice.
| PROBE_ID | SYMBOL | DEFINITION | FOLD CHANGE A-IKO/A-ITg | p-value | Expression associated with adverse prognosis in humans |
|---|---|---|---|---|---|
| ILMN_1231392 | Melk | maternal embryonic leucine zipper kinase (Melk), mRNA. | 1.5 | 0.002 | Up regulated |
| ILMN_2804444 | Pcdh17 | protocadherin 17 (Pcdh17), mRNA. | 1.5 | 0.001 | Up regulated |
| ILMN_2741050 | Rfc4 | replication factor C (activator 1) 4 (Rfc4), mRNA. | 1.4 | 0.013 | Up regulated |
| ILMN_2757224 | Srp19 | signal recognition particle 19 (Srp19), mRNA. | 1.4 | 0.005 | Up regulated |
| ILMN_2711112 | Shcbp1 | Shc SH2-domain binding protein 1 (Shcbp1), mRNA. | 1.4 | 0.001 | Up regulated |
| ILMN_2878355 | Kpna2 | karyopherin (importin) alpha 2 (Kpna2), mRNA. | 1.4 | 0.005 | Up regulated |
| ILMN_2607926 | Kdelr2 | KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 2 (Kdelr2), mRNA. | 1.4 | 0.002 | Up regulated |
| ILMN_2714565 | Rrm2 | ribonucleotide reductase M2 polypeptide | 1.4 | 0.002 | Up regulated |
| ILMN_2756008 | Nasp | nuclear autoantigenic sperm protein (histone-binding) | 1.4 | 0.002 | Up regulated |
| ILMN_2816754 | Ndc80/Kntc2 | NDC80 homolog, kinetochore complex component (S. cerevisiae) (Ndc80), mRNA. | 1.4 | 0.006 | Up regulated |
| ILMN_2971845 | Dtymk | deoxythymidylate kinase (Dtymk), mRNA. | 1.4 | 0.006 | Up regulated |
| ILMN_2588362 | Cdca8 | cell division cycle associated 8 (Cdca8), mRNA. | 1.4 | 0.003 | Up regulated |
| ILMN_2934457 | Ran | RAN, member RAS oncogene family (Ran), mRNA. | 1.4 | 0.004 | Up regulated |
| ILMN_2688944 | Htra2/Prss25 | HtrA serine peptidase 2 (Htra2), nuclear gene encoding mitochondrial protein, mRNA. | 1.4 | 0.001 | Up regulated |
| ILMN_1214319 | Gemin6 | gem (nuclear organelle) associated protein 6 (Gemin6), mRNA. | 1.4 | 0.001 | Up regulated |
| ILMN_2632712 | Birc5 | baculoviral IAP repeat-containing 5 (Birc5), transcript variant 1, mRNA. | 1.4 | 0.006 | Up regulated |
| ILMN_2999654 | Psmc3ip | proteasome (prosome, macropain) 26S subunit, ATPase 3, interacting protein (Psmc3ip), mRNA. | 1.4 | 0.003 | Up regulated |
| ILMN_2780177 | Mrps5 | mitochondrial ribosomal protein S5 (Mrps5), nuclear gene encoding mitochondrial protein, mRNA. | 1.4 | 0.005 | Up regulated |
| ILMN_1244296 | Cdc14b/Znf367 | CDC14 cell division cycle 14 homolog B (S. cerevisiae) (Cdc14b), mRNA. | 1.4 | 0.024 | Up regulated |
| ILMN_1257552 | Tars | threonyl-tRNA synthetase (Tars), mRNA. | 1.4 | 0.008 | Up regulated |
| ILMN_2621422 | Kirrel | kin of IRRE like (Drosophila) (Kirrel), mRNA. | 1.3 | 0.026 | Up regulated |
| ILMN_2982965 | Prim2 | DNA primase, p58 subunit (Prim2), mRNA. | 1.3 | 0.005 | Up regulated |
| ILMN_2598852 | Ranbp1 | RAN binding protein 1 (Ranbp1), mRNA. | 1.3 | 0.007 | Up regulated |
| ILMN_3097131 | Timeless | timeless homolog (Drosophila) (Timeless), transcript variant 2, mRNA. | 1.3 | 0.013 | Up regulated |
| ILMN_2595846 | Surf4 | surfeit gene 4 (Surf4), mRNA. | 1.3 | 0.003 | Up regulated |
| ILMN_2639036 | Hspd1 | heat shock protein 1 (chaperonin) (Hspd1), mRNA. | 1.3 | 0.011 | Up regulated |
| ILMN_2745005 | Gpn3/MGC14560 | GPN-loop GTPase 3 (Gpn3), mRNA. | 1.3 | 0.005 | Up regulated |
| ILMN_2619671 | Mrps16 | mitochondrial ribosomal protein S16 (Mrps16), nuclear gene encoding mitochondrial protein, mRNA. | 1.3 | 0.011 | Up regulated |
| ILMN_2787871 | Cdca5 | cell division cycle associated 5 (Cdca5), mRNA. | 1.3 | 0.008 | Up regulated |
| ILMN_2768984 | Anln | anillin, actin binding protein (Anln), mRNA. | 1.3 | 0.032 | Up regulated |
| ILMN_2484707 | Tyms | thymidylate synthase (Tyms), mRNA. | 1.3 | 0.013 | Up regulated |
| ILMN_2919433 | Cdc45l | cell division cycle 45 homolog (S. cerevisiae)-like (Cdc45l), mRNA. | 1.3 | 0.043 | Up regulated |
| ILMN_1218967 | Kif2c | kinesin family member 2C (Kif2c), mRNA. | 1.3 | 0.015 | Up regulated |
| ILMN_1233857 | Mcm6 | minichromosome maintenance deficient 6 (MIS5 homolog, S. pombe) (S. cerevisiae) (Mcm6), mRNA. | 1.3 | 0.012 | Up regulated |
| ILMN_2749937 | Ncoa6 | nuclear receptor coactivator 6 (Ncoa6), mRNA. | 1.3 | 0.011 | Up regulated |
| ILMN_2797642 | Ncaph/Brrn1 | non-SMC condensin I complex, subunit H (Ncaph), mRNA. | 1.3 | 0.013 | Up regulated |
| ILMN_2637203 | Rfc5 | replication factor C (activator 1) 5 (Rfc5), mRNA. | 1.3 | 0.022 | Up regulated |
| ILMN_2758690 | Mrps17 | mitochondrial ribosomal protein S17 (Mrps17), mRNA. | 1.3 | 0.012 | Up regulated |
| ILMN_2706882 | Donson | downstream neighbor of SON (Donson), mRNA. | 1.3 | 0.028 | Up regulated |
| ILMN_2698282 | Fusip1 | FUSiinteracting protein | 1.3 | 0.010 | Up regulated |
| ILMN_2680648 | Atad2 | ATPase family, AAA domain containing 2 (Atad2), mRNA. | 1.3 | 0.026 | Up regulated |
| ILMN_2983686 | Trub2 | TruB pseudouridine (psi) synthase homolog 2 (E. coli) (Trub2), mRNA. | 1.3 | 0.017 | Up regulated |
| ILMN_2657844 | Cdc2a | cell division cycle 2 homolog A (S. pombe) (Cdc2a), mRNA. | 1.3 | 0.021 | Up regulated |
| ILMN_2605890 | Tk1 | thymidine kinase 1 (Tk1), mRNA. | 1.3 | 0.036 | Up regulated |
| ILMN_2677595 | Ncapg2/Mtb | non-SMC condensin II complex, subunit G2 (Ncapg2), mRNA. | 1.2 | 0.022 | Up regulated |
| ILMN_2608933 | Tcof1 | Treacher Collins Franceschetti syndrome 1, homolog (Tcof1), mRNA. | 1.2 | 0.030 | Up regulated |
| ILMN_1233065 | Rbmx | RNA binding motif protein, X chromosome (Rbmx), mRNA. | 1.2 | 0.053 | Up regulated |
| ILMN_3163044 | Ola1/PTD004 | Obg-like ATPase 1 (Ola1), transcript variant 1, mRNA. | 1.2 | 0.016 | Up regulated |
| ILMN_1236574 | Cenpa | centromere protein A (Cenpa), mRNA. | 1.2 | 0.016 | Up regulated |
| ILMN_3162184 | AU014645/Ncbp1 | expressed sequence AU014645 (AU014645), mRNA. | 1.2 | 0.010 | Up regulated |
| ILMN_1221067 | Nme1 | non-metastatic cells 1, protein (NM23A) expressed in (Nme1), mRNA. | 1.2 | 0.006 | Up regulated |
| ILMN_2830661 | Top2a | topoisomerase (DNA) II alpha (Top2a), mRNA. | 1.2 | 0.025 | Up regulated |
| ILMN_2975640 | Snrpg | small nuclear ribonucleoprotein polypeptide G (Snrpg), mRNA. | 1.2 | 0.013 | Up regulated |
| ILMN_1245757 | Nans | N-acetylneuraminic acid synthase (sialic acid synthase) (Nans), mRNA. | 1.2 | 0.027 | Up regulated |
| ILMN_2717172 | Dph3/Zcsl2 | DPH3 homolog (KTI11, S. cerevisiae) (Dph3), transcript variant 2, mRNA. | 1.2 | 0.043 | Up regulated |
| ILMN_2936427 | Mcm4 | minichromosome maintenance deficient 4 homolog (S. cerevisiae) (Mcm4), mRNA. | 1.2 | 0.050 | Up regulated |
| ILMN_1242622 | Crem | cAMP responsive element modulator (Crem), mRNA. | 0.7 | 0.002 | Up regulated |
| ILMN_2631423 | H2-Ab1/HLA-DQB1 | histocompatibility 2, class II antigen A, beta 1 (H2-Ab1), mRNA. | 0.6 | 0.005 | Down regulated |
| ILMN_2688912 | F10 | coagulation factor X | 0.4 | 0.012 | Down regulated |
| ILMN_1258462 | Hoxa9 | homeo box A9 (Hoxa9), mRNA. | 1.5 | 0.031 | Down regulated |
| ILMN_2655373 | Siat7f | CMP-NeuAC:(b)-N-acetylgalactosaminide (a)2,6-sialyltransferase member VI | 1.5 | 0.004 | Down regulated |
| ILMN_1232182 | Ctnnbip1 | catenin beta interacting protein 1 (Ctnnbip1), mRNA. | 1.3 | 0.020 | Down regulated |
One-hundred-thirty (130) human genes previously identified as part of a gene signature associated with poor prognosis in melanoma [8] were compared with genes identified in this study from the differential analysis of day 7 B16F10L melanoma tumors with respect to fold-change (A-I KO/A-I Tg+/–) in expression signal normalized to beta-2-microglobulin with a p-value cut off < 0.05 (Student’s t-test). The human microarray study identified the expression profile of genes associated with 4-year distant metastasis-free survival, metastasis, or death among 58 patients with 4-yr follow up [8]. Of the 250 human genes identified only 130 were eligible for comparison in our current study. Here we provide a list of genes in our study that were compared with the human microarray study. Boxes denote genes that were not concordant in the two studies. Genes with significant difference in expression between A-IKO and A-ITg.