Table 1 Genes rapidly down regulated (>3 fold in 3 days) upon ES cell differentiation
Gene Name | Synonyms | Genbank ID | Fold ↓ D0 → D3 | Raw D0 | Function | Refs |
|---|---|---|---|---|---|---|
Secreted phosphoprotein 1 | Osteopontin; Spp1 | NM_009263 | 26.8 | 3588 | Reg. by Oct4 and Sox2 | [21, 96] |
Estrogen related receptor, beta | Err2; Estrrb; Nr3b2 | NM_011934 | 24.0 | 4238 | ES cell renewal, placenta | [97] |
F-box 15 | Fbx15 | NM_015798 | 21.8 | 4487 | Stem cell specific locus | [23] |
RIKEN cDNA 2200001I15 | 2200001I15Rik | NM_183278 | 18.3 | 2780 | Â | Â |
Kruppel-like factor 2 | Klf2; Lklf | NM_008452 | 17.0 | 2639 | Vascular defect | [49] |
Left-right determination, factor B | Leftb; Stra3; Tgfb4; Lefty 1 | NM_010094 | 14.4 | 2537 | Nodal signalling inhibitor | [87] |
Transcription factor CP2-like 1 | Crtr-1; LBP-9 | NM_023755 | 13.8 | 2237 | ES cells, repressor | [98] |
Zinc finger protein 42 | Rex-1; Rex1; Zfp-42 | NM_009556 | 13.4 | 2108 | Nanog-Sox2 induced | [99, 100] |
L-threonine dehydrogenase | Tdh | NM_021480 | 10.9 | 1764 | L-threonine degradation | [101] |
DNA (cytosine-5-)-methyltransferase 3-like | D6Ertd14e, Dnmt3l | NM_019448 | 10.8 | 5226 | Maternal imprinting | [102] |
Transcription elongation factor A, 3 | S-II, Tcea3 | NM_011542 | 8.6 | 3874 | ICM Expression | [103] |
Myosin light chain, skeletal muscle | MLC-2; Mlc2, Mylpf | NM_016754 | 8.6 | 1560 | Cardiac muscle | [104] |
S100 calcium binding protein A6 | Cacy, S100a6, calcyclin | NM_011313 | 8.2 | 9086 | Cell cycle regulation | [105] |
Testis expressed gene 19 | Tex19, 2410081M02Rik | NM_028602 | 8.1 | 1963 | Spermatogonia | [106] |
Epithelial membrane protein 1 | TMP, Emp1 | NM_010128 | 7.9 | 1030 | Neuronal differentiation | [107] |
DNA segment, Chr 11, ERATO Doi 636 | D11Ertd636e | NM_029794 | 7.9 | 1278 | Expressed in Morula | [108] |
Similar to solute carrier family 7, member 3 | Slc7a3 | . NM_001004153 | 7.3 | 1036 | Â | Â |
Left-right determination, factor 2 | Lefta; Ebaf; Lefty 2 | NM_177099 | 7.2 | 1903 | Inhibitor of Nodal | [109] |
Junction adhesion molecule 2 | Jcam2; VE-JAM, Jam2 | NM_023844 | 6.5 | 713 | KO normal | [110] |
Lysosomal-associated protein, transmembrane 5 | E3, Laptm5 | NM_010686 | 6.5 | 1539 | haematopoiesis | [111] |
Discoidin domain receptor 1 | Drr1, MCK10, EDDR1 | . NM_007584 | 6.4 | 5451 | Collagen response receptor | [112] |
Aminoadipate-semialdehyde synthase | Aass, LKR/SDH; Lorsdh | NM_013930 | 6.2 | 1094 | Mitochondria | [113] |
RIKEN cDNA 2410039E07 | 2410039E07Rik | NM_212483 | 6.2 | 737 | Â | Â |
RIKEN cDNA 2410004A20 | 2410004A20Rik | NM_025890 | 5.7 | 644 | Â | Â |
Gastrulation brain homeobox 2 | Gbx2, MMoxA;Stra7 | NM_010262 | 5.6 | 1204 | Midbrain/hindbrain organiser | [114] |
cDNA sequence BC050188 | 4933403D14 | NM_177742 | 5.6 | 497 | Â | Â |
Cordon-bleu | Cobl, C530045F18Rik | NM_172496 | 5.1 | 619 | Â | Â |
Similar to EF 1A | eIF-1A, eIF-4C | XM_181357 | 5.0 | 538 | Â | Â |
Regulatory factor X, 2 | Rfx2 | NM_009056 | 4.9 | 796 | ICM expression | [103] |
Tissue inhibitor of metalloproteinase 1 | Clgi;Timp;TIMP-1 | NM_011593 | 4.6 | 1732 | Metalloproteinase inhibitor matrix | [115] |
Kruppel-like factor 4 | Klf4, Gklf; Zie | NM_010637 | 4.5 | 597 | Epidermal, gut defect | [116] |
Insulin-like growth factor binding protein 7 | Igfbp7, Fstl2, mac25 | NM_008048 | 4.4 | 813 | Â | Â |
latent transforming growth factor BP4 | Ltbp4, 2310046A13Rik | NM_175641 | 4.4 | 481 | Â | Â |
DnaJ (Hsp40) homolog, subfamily C, 6 | Dnajc6, 2810027M23Rik | NM_198412 | 4.3 | 490 | Â | Â |
Kruppel-like factor 5 | Klf5, Bteb2, IKLF | NM_009769 | 4.3 | 1797 | Cardiovascular remodelling | [117] |
Nuclear receptor subfamily 5, group A, 2 | Nr5a2, Ftf;LRH-1 | NM_030676 | 4.2 | 494 | Ovary granulosa cells | [118] |
RIKEN cDNA D230005D02 | B230207J08 | NM_172813 | 4.2 | 433 | Â | Â |
Nuclear protein 1 | Nupr1, Com1;p8 | NM_019738 | 4.1 | 388 | KO normal | [119] |
Intercellular adhesion molecule | Icam1, CD54, Icam-1 | NM_010493 | 4.1 | 716 | KO normal, inflammation | [120] |
Interleukin-1 receptor-associated kinase 3 | Irak3, IRAK-M | NM_028679 | 3.9 | 409 | Immune homeostasis | [121] |
Keratin complex 1, acidic, gene 17 | Krt1-17, K17 | NM_010663 | 3.9 | 368 | Embryonic ectoderm | [122] |
Stathmin-like 2 | Stmn2, Scgn10, Stmb2 | NM_025285 | 3.9 | 712 | KO normal, cell cycle | [123] |
Suppressor of cytokine signaling 3 | Socs3, CIS3, SSI-3 | NM_007707 | 3.8 | 1081 | LIF singalling | [124] |
Lipase, member H | Lpdlr; PLA1B Liph | NM_153404 | 3.8 | 446 | Lipid metabolism | [125] |
RIKEN cDNA 4933405K07 | 4930427I11Rik | NM_028913 | 3.8 | 573 | Â | Â |
Erythrocyte protein band 4.1-like 4a | Epb4.1l4, NBL4 | NM_013512 | 3.8 | 809 | beta-catenin/Tcf pathway | [126] |
Polo-like kinase 3 (Drosophila) (Plk3) | Cnk, Fnk, PRK | NM_013807 | 3.7 | 567 | Mitosis regulator | [127] |
Heat shock protein 1 (Hspb1) | 27 kDa, Hsp25 | NM_013560 | 3.7 | 3731 | Blastocyst expression | [128] |
RIKEN cDNA 1700061G19 | 1700061G19Rik | XM_140052 | 3.7 | 425 | Â | Â |
Mannosidase, beta A, lysosomal | Bmn, Manba | NM_027288 | 3.7 | 484 | Glycoprotein cleavage, KO normal | [129] |
Developmental pluripotency-associated 3 | PCG7, Stella, Dppa3 | NM_139218 | 3.6 | 450 | Expressed in preimplantation embryos | [130] |
Lysyl oxidase | TSC-160, Lox | NM_010728 | 3.6 | 644 | KO cardiovascular defects | [131] |
RIKEN cDNA E130014J05 | Tet2 | NM_145989 | 3.5 | 866 | Â | Â |
Myeloblastosis oncogene-like 2 | B-myb, Mybl2 | NM_008652 | 3.3 | 718 | Cell proliferation G1/S transition | [132] |
Pleckstrin homology domain containing, A4 | PEPP1, Plekha4 | NM_148927 | 3.3 | 532 | Preimplantation embryo expression | [108] |
Aurora kinase C (Aurkc) | AIK3, Stk13 | NM_020572 | 3.3 | 305 | Chromosome segregation | [133] |
Fibroblast growth factor binding protein 1 | FGF-BP, Fgfbp1 | NM_008009 | 3.1 | 312 | Enhances FGF activity | [134] |
Caveolin, caveolae protein 1 | Cav1 | NM_007616 | 3.1 | 438 | KO viable, vascular defects | [135] |