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Table 1 Genes rapidly down regulated (>3 fold in 3 days) upon ES cell differentiation

From: Dynamic transcription programs during ES cell differentiation towards mesoderm in serum versus serum-freeBMP4 culture

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   
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   
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   
RIKEN cDNA 2410004A20 2410004A20Rik NM_025890 5.7 644   
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   
Cordon-bleu Cobl, C530045F18Rik NM_172496 5.1 619   
Similar to EF 1A eIF-1A, eIF-4C XM_181357 5.0 538   
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   
latent transforming growth factor BP4 Ltbp4, 2310046A13Rik NM_175641 4.4 481   
DnaJ (Hsp40) homolog, subfamily C, 6 Dnajc6, 2810027M23Rik NM_198412 4.3 490   
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   
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   
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   
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   
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]