Putative tumor maintenance genes
| A. Maintenance genes sorted by gene ontology biological process . | . | . | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| . | Type A genes induced when Myc is activated and repressed when Myc is deactivated . | Type B genes repressed upon Myc activation and reexpressed when Myc is deactivated . | ||||||||||
| Angiogenesis | Crhr2, Epas1 | — | ||||||||||
| Apoptosis | Accn1, Casp2, Fadd, Foxo3 | Dap, Nfkb1, Sgpl1, Siah2 | ||||||||||
| Cell cycle/proliferation | Ak1, Ccng2, Cdc25c, Ect2, Jun, Lzf | D17Wsu104e, Pard6a, Siah2 | ||||||||||
| Cell adhesion | Cspg2, Vcam1 | — | ||||||||||
| Cell growth and/or maintenance | Ect2, Foxo3, Jun, Socs3 | — | ||||||||||
| Cytoskeleton or microtubule | Kifc5a, Krt1-18, Mtap6 | 6720463E02Rik, Map1lc3, Nde1 | ||||||||||
| Development or organogenesis/morphogenesis | Epas1, Fzd9, Jun, Zbtb16 | Arpc1a, Bmp1, Dcx, Nfkb1, Siah2, Th | ||||||||||
| Endocytosis | Dnm, Cubn | — | ||||||||||
| Glycolysis | Eno1, Pklr | — | ||||||||||
| Glycosylation | St6galnac4, St6gal1 | Rpn1 | ||||||||||
| Metabolism | Ak1, Ccs, Galm, Gmip, Gsr, Gyk, Mvk, Sms, Uox | 2410012M04Rik, Atp2a2, Cryl1, Fh1, Mcfd2, Psap, Sgpl1, Th | ||||||||||
| mRNA processing | — | A1462438, Cpsf3 | ||||||||||
| Phosphorylation/dephosphorylation | Cdc25c, Dyrk1a, Ltk, Matk, Mvk, Pdk4, Ptk2b | Ppm1b, Pxk, Slk, Stk16 | ||||||||||
| Protein biosynthesis or translation | 2410005K20Rik, Cubn, Eif4ebp1, Sars2 | Eef2, Eif4b, Mrpl4, Mrps18a, Mrps18b, Tars, Wars | ||||||||||
| Protein folding | Ccs | Cct3, Cct4, Dnajb1, Dnajb10, Dnajb11, Tra1 | ||||||||||
| Proteolysis | Adprtl2, Blmh, Casp2, Erf | Bmp1, Xpnpep1 | ||||||||||
| Signaling/signal transduction | Crhr2, Ect2, Eif4ebp1, Epas1, Fadd, Fzd9, Gabrg3, Gcgr, Gmip, Ltk, Matk, Olfr16, Pde1b, Racgap1, Rasal1, Socs3, Stmn4 | Arfrp1, Arl4, Crcp, Dcx, Nfkb1, Pdzk11, Pxk | ||||||||||
| Transcription | D1Ertd161e, Epas1, Erf, Fhl2, Jun, Mnt, Myt1, Rpo1-2, Sox4, Tead4, Tieg1, Zfp28 | Nfkb1, Rnf14, Xbp1 | ||||||||||
| Transport | Accn1, Atp1b1, Ccs, Clcn1, Gabrg3, Gsr, Kif20a, Slc6a8, Txndc9, Txn12 | 1300013B2Rik, Aass, Abcc8, Arl4, Atp2a2, Gdi1, Mcfd2, Sec22l1, Sec23b, Sytl4, Txndc7 | ||||||||||
| Ubiquitin cycle | 2700084L22Rik, Usp2 | Pxmp3, Rnf14, Siah2 | ||||||||||
| Other | 2010016F14Rik, C1qtnf1, Dbn1, Mpz, Serpina1a, Serpina1d, Txnip | Anxa5, Cmas, Gch1, H2-Q7, H2-D1, LOC280487, Nme2 | ||||||||||
| Not specified | 1500010J02Rik, 1500034J01Rik, 1810030O07Rik, 1810044D09Rik, 2410018L13Rik, 2900054D09Rik, 6230416J20Rik, AI464131, AI591476, BC037006, Bub1, C330027C09Rik, C79407, C80638, Cck, Ceacam11, Cep2, Col5a1, Crlf1, Csnk, D10627, D430019H16Rik, D4Ertd196e, D5Ertd363e, D930048N14Rik, Dlk1, Dnajc11, Egln2, Eif4ebp2, Fez1, Gtse1, H1fx, Hrc, Ide, Iqcf4, Itgb1bp1, Jarid1b, Lpin1, Lpp, Midn, Pcdha10, Phlda3, Pspc1, Riok3, Sct, Sez6, Slc35b1, Slc35e4, Ssbp4, Surf2, Tmem5, Wiz, Zdhhc9, Zfp259, Zfp277 | 0610010K14Rik, 1110008P14Rik, 1110014C03Rik, 1700023O11Rik, 1810010N17Rik, 1810046J19Rik, 2310004K06Rik, 2410022L05Rik, 2610208E05Rik, 2610507B11Rik, 2900010J23Rik, 833439L19Rik, 5730592L21Rik, 6330442E10Rik, Armet, B230114J08Rik, C130052I12Rik, Cdk5rap3, Cenpc1, Commd7, D030028O16Rik, D19Ertd144e, Derl2, Dnajc3, Fut8, Gas5, Gng12, Ik, Mapbpip, Mrpl54, Ndg2, Pik3c3, Pprc1, Pscd3, Rad17, Sec23ip, Tbrg1, Tgtp, Vasp | ||||||||||
| B. Ten early target genes implicated in tumor maintenance in pIns-MycERTAM/RIP7-Bcl-xL transgenic mice | ||||||||||||
| Probeset ID | Gene name | Gene symbol | Ref Seq | EBOX* | Present in database | (a) GO biological process (b) Published role in cancer | ||||||
| 96518_at | cDNA sequence BC037006 | BC037006 | XM_109956 | Yes | No | (a) — | ||||||
| (b) No | ||||||||||||
| 100636_at | Eukaryotic translation initiation factor 4E binding protein 1 | Eif4ebp1 | NM_007918 | Yes | No | (a) Insulin receptor signaling pathway, negative regulation of protein biosynthesis, negative regulation of translational initiation, regulation of protein biosynthesis, regulation of translation, and regulation of translational initiation | ||||||
| (b) Yes (45) | ||||||||||||
| 99844_at | Frizzled homologue 9 (Drosophila) | Fzd9 | XM_284144 | Yes | No | (a) G-protein coupled receptor protein signaling pathway, Wnt receptor signaling pathway, cell surface receptor linked signal transduction, development, and frizzled signaling pathway | ||||||
| (b) Yes (46) | ||||||||||||
| 93647_at | Gem-interacting protein | Gmip | NM_198101 | Yes | Yes | (a) Intracellular signaling cascade and metabolism | ||||||
| (b) No | ||||||||||||
| 96682_at | ST6 (α-N-acetyl-neuraminyl-2,3-β-galactosyl-1,3)-N-acetylgalactosaminide α-2,6-sialyltransferase 4 | St6galnac4 | NM_011373 | Yes | Yes | (a) Protein amino acid glycosylation | ||||||
| (b) Yes (44) | ||||||||||||
| 92202_g_at | Zinc finger and BTB domain containing 16 | Zbtb16 | XM_134826 | Yes | No | (a) Skeletal development, negative regulation of cell proliferation, embryonic pattern specification, anterior, posterior pattern formation, embryonic limb morphogenesis, forelimb morphogenesis, positive regulation of apoptosis, regulation of transcription, negative regulation of transcription, and DNA-dependent, male germ-line stem cell division | ||||||
| (b) Yes (43) | ||||||||||||
| 160119_at | RIKEN cDNA 5730592L21 gene | 5730592L21Rik | NM_029720 | Yes | No | (a) — | ||||||
| (b) No | ||||||||||||
| 93842_at | Death-associated protein | Dap | NM_146057 | No | No | (a) Apoptosis and induction of apoptosis by extracellular signal | ||||||
| (b) No | ||||||||||||
| 160769_at | Der1-like domain family, member 2 | Derl2 | NM_033562 | No | No | (a) — | ||||||
| (b) Yes (48) | ||||||||||||
| 98944_at | SEC23B (Saccharomyces cerevisiae) | Sec23b | NM_019787 | No | Yes | (a) Endoplasmic reticulum to Golgi transport, intracellular protein transport, protein transport, and transport | ||||||
| (b) No | ||||||||||||
| A. Maintenance genes sorted by gene ontology biological process . | . | . | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| . | Type A genes induced when Myc is activated and repressed when Myc is deactivated . | Type B genes repressed upon Myc activation and reexpressed when Myc is deactivated . | ||||||||||
| Angiogenesis | Crhr2, Epas1 | — | ||||||||||
| Apoptosis | Accn1, Casp2, Fadd, Foxo3 | Dap, Nfkb1, Sgpl1, Siah2 | ||||||||||
| Cell cycle/proliferation | Ak1, Ccng2, Cdc25c, Ect2, Jun, Lzf | D17Wsu104e, Pard6a, Siah2 | ||||||||||
| Cell adhesion | Cspg2, Vcam1 | — | ||||||||||
| Cell growth and/or maintenance | Ect2, Foxo3, Jun, Socs3 | — | ||||||||||
| Cytoskeleton or microtubule | Kifc5a, Krt1-18, Mtap6 | 6720463E02Rik, Map1lc3, Nde1 | ||||||||||
| Development or organogenesis/morphogenesis | Epas1, Fzd9, Jun, Zbtb16 | Arpc1a, Bmp1, Dcx, Nfkb1, Siah2, Th | ||||||||||
| Endocytosis | Dnm, Cubn | — | ||||||||||
| Glycolysis | Eno1, Pklr | — | ||||||||||
| Glycosylation | St6galnac4, St6gal1 | Rpn1 | ||||||||||
| Metabolism | Ak1, Ccs, Galm, Gmip, Gsr, Gyk, Mvk, Sms, Uox | 2410012M04Rik, Atp2a2, Cryl1, Fh1, Mcfd2, Psap, Sgpl1, Th | ||||||||||
| mRNA processing | — | A1462438, Cpsf3 | ||||||||||
| Phosphorylation/dephosphorylation | Cdc25c, Dyrk1a, Ltk, Matk, Mvk, Pdk4, Ptk2b | Ppm1b, Pxk, Slk, Stk16 | ||||||||||
| Protein biosynthesis or translation | 2410005K20Rik, Cubn, Eif4ebp1, Sars2 | Eef2, Eif4b, Mrpl4, Mrps18a, Mrps18b, Tars, Wars | ||||||||||
| Protein folding | Ccs | Cct3, Cct4, Dnajb1, Dnajb10, Dnajb11, Tra1 | ||||||||||
| Proteolysis | Adprtl2, Blmh, Casp2, Erf | Bmp1, Xpnpep1 | ||||||||||
| Signaling/signal transduction | Crhr2, Ect2, Eif4ebp1, Epas1, Fadd, Fzd9, Gabrg3, Gcgr, Gmip, Ltk, Matk, Olfr16, Pde1b, Racgap1, Rasal1, Socs3, Stmn4 | Arfrp1, Arl4, Crcp, Dcx, Nfkb1, Pdzk11, Pxk | ||||||||||
| Transcription | D1Ertd161e, Epas1, Erf, Fhl2, Jun, Mnt, Myt1, Rpo1-2, Sox4, Tead4, Tieg1, Zfp28 | Nfkb1, Rnf14, Xbp1 | ||||||||||
| Transport | Accn1, Atp1b1, Ccs, Clcn1, Gabrg3, Gsr, Kif20a, Slc6a8, Txndc9, Txn12 | 1300013B2Rik, Aass, Abcc8, Arl4, Atp2a2, Gdi1, Mcfd2, Sec22l1, Sec23b, Sytl4, Txndc7 | ||||||||||
| Ubiquitin cycle | 2700084L22Rik, Usp2 | Pxmp3, Rnf14, Siah2 | ||||||||||
| Other | 2010016F14Rik, C1qtnf1, Dbn1, Mpz, Serpina1a, Serpina1d, Txnip | Anxa5, Cmas, Gch1, H2-Q7, H2-D1, LOC280487, Nme2 | ||||||||||
| Not specified | 1500010J02Rik, 1500034J01Rik, 1810030O07Rik, 1810044D09Rik, 2410018L13Rik, 2900054D09Rik, 6230416J20Rik, AI464131, AI591476, BC037006, Bub1, C330027C09Rik, C79407, C80638, Cck, Ceacam11, Cep2, Col5a1, Crlf1, Csnk, D10627, D430019H16Rik, D4Ertd196e, D5Ertd363e, D930048N14Rik, Dlk1, Dnajc11, Egln2, Eif4ebp2, Fez1, Gtse1, H1fx, Hrc, Ide, Iqcf4, Itgb1bp1, Jarid1b, Lpin1, Lpp, Midn, Pcdha10, Phlda3, Pspc1, Riok3, Sct, Sez6, Slc35b1, Slc35e4, Ssbp4, Surf2, Tmem5, Wiz, Zdhhc9, Zfp259, Zfp277 | 0610010K14Rik, 1110008P14Rik, 1110014C03Rik, 1700023O11Rik, 1810010N17Rik, 1810046J19Rik, 2310004K06Rik, 2410022L05Rik, 2610208E05Rik, 2610507B11Rik, 2900010J23Rik, 833439L19Rik, 5730592L21Rik, 6330442E10Rik, Armet, B230114J08Rik, C130052I12Rik, Cdk5rap3, Cenpc1, Commd7, D030028O16Rik, D19Ertd144e, Derl2, Dnajc3, Fut8, Gas5, Gng12, Ik, Mapbpip, Mrpl54, Ndg2, Pik3c3, Pprc1, Pscd3, Rad17, Sec23ip, Tbrg1, Tgtp, Vasp | ||||||||||
| B. Ten early target genes implicated in tumor maintenance in pIns-MycERTAM/RIP7-Bcl-xL transgenic mice | ||||||||||||
| Probeset ID | Gene name | Gene symbol | Ref Seq | EBOX* | Present in database | (a) GO biological process (b) Published role in cancer | ||||||
| 96518_at | cDNA sequence BC037006 | BC037006 | XM_109956 | Yes | No | (a) — | ||||||
| (b) No | ||||||||||||
| 100636_at | Eukaryotic translation initiation factor 4E binding protein 1 | Eif4ebp1 | NM_007918 | Yes | No | (a) Insulin receptor signaling pathway, negative regulation of protein biosynthesis, negative regulation of translational initiation, regulation of protein biosynthesis, regulation of translation, and regulation of translational initiation | ||||||
| (b) Yes (45) | ||||||||||||
| 99844_at | Frizzled homologue 9 (Drosophila) | Fzd9 | XM_284144 | Yes | No | (a) G-protein coupled receptor protein signaling pathway, Wnt receptor signaling pathway, cell surface receptor linked signal transduction, development, and frizzled signaling pathway | ||||||
| (b) Yes (46) | ||||||||||||
| 93647_at | Gem-interacting protein | Gmip | NM_198101 | Yes | Yes | (a) Intracellular signaling cascade and metabolism | ||||||
| (b) No | ||||||||||||
| 96682_at | ST6 (α-N-acetyl-neuraminyl-2,3-β-galactosyl-1,3)-N-acetylgalactosaminide α-2,6-sialyltransferase 4 | St6galnac4 | NM_011373 | Yes | Yes | (a) Protein amino acid glycosylation | ||||||
| (b) Yes (44) | ||||||||||||
| 92202_g_at | Zinc finger and BTB domain containing 16 | Zbtb16 | XM_134826 | Yes | No | (a) Skeletal development, negative regulation of cell proliferation, embryonic pattern specification, anterior, posterior pattern formation, embryonic limb morphogenesis, forelimb morphogenesis, positive regulation of apoptosis, regulation of transcription, negative regulation of transcription, and DNA-dependent, male germ-line stem cell division | ||||||
| (b) Yes (43) | ||||||||||||
| 160119_at | RIKEN cDNA 5730592L21 gene | 5730592L21Rik | NM_029720 | Yes | No | (a) — | ||||||
| (b) No | ||||||||||||
| 93842_at | Death-associated protein | Dap | NM_146057 | No | No | (a) Apoptosis and induction of apoptosis by extracellular signal | ||||||
| (b) No | ||||||||||||
| 160769_at | Der1-like domain family, member 2 | Derl2 | NM_033562 | No | No | (a) — | ||||||
| (b) Yes (48) | ||||||||||||
| 98944_at | SEC23B (Saccharomyces cerevisiae) | Sec23b | NM_019787 | No | Yes | (a) Endoplasmic reticulum to Golgi transport, intracellular protein transport, protein transport, and transport | ||||||
| (b) No | ||||||||||||
MYC:MAX binding site determined by promoter sequence analysis using Matinspector Software (http://www.genomatix.de).