Table 1. Up-regulated genes in Mesp1 GFP+ cells in vivo.
| Category | Up-regulated genes |
|---|---|
| 1. Transcription Factors/Chromatin Remodelling | Mixl1 (23 ;3), Meis2 (17 ;2), Mesp1 (15 ;2), Gata6 (12 ;2), Sp5 (11 ;2), Lhx1 (10 ;2), Hoxb1 (10 ;1.3), Snai1 (9 ;1.5), Peg3 (9 ;1.1), Klhl6 (9;3), T (8 ;1.4), Mesp2 (7 ;3), Gata4 (7 ;2), Tbx3 (7 ;0.8), Tbx6 (6 ;2), Nfatc1 (6 ;0.6), Pdlim5 (6 ;2), Irx5 (5 ;1.2), Evx1 (5 ;1.1), Sall3 (5 ;1.4), Otx1 (5 ;1.0), Zfx (5 ;0.3), Odz4 (5 ;2), Whsc1l1 (4 ;0.9), Six2 (4 ;2), Cdx1 (4 ;0.7), Id1 (3 ;0.4), Hand1 (3 ;0.6), Gabpa (3 ;1.4), Zfp423 (3 ;0.7), Msgn1 (3 ;0.8), Rreb1 (3 ;1.0), Pbx1 (3 ;1.5), Nfat5 (3 ;1.3), Psmd9 (3 ;1.1), Foxc1 (3 ;2), Rxrg (3 ;2), Eomes (3 ;2), Lef1 (3 ;1.4), Zeb2 (3 ;1.3), Phc2 (3 ;1.4), Glis1 (3 ;1.3), Irx3 (2 ;0.5), Hey1 (2 ;0.8), Etv2 (2 ;0.7), Hmga2 (2 ;0.9), Hdac2 (2 ;1.1), Sfpq (2 ;1.1), Ring1 (2 ;0.8), Zfp516 (2 ;1.5), Zbtb44 (2 ;0.6), Tcf4 (2 ;1.0), Nfil3 (2 ;1.3), Setdb1 (2 ;0.9), Chd7 (2 ;1.5), Terf2 (2 ;1.1), Eny2 (2 ;1.0), Pdlim4 (2 ;1.4), Cux1 (2 ;1.2), Klf9 (2 ;0.7), Arid3b (2 ;1.3), Cited2 (2 ;1.0), Wwtr1 (2 ;1.3), Kdm6b (2 ;2), Srf (2 ;2), Med13l (2 ;2), Pitx2 (2 ;2), Msx1 (2 ;2), Maml2 (2 ;2), Msx2 (2 ;2), Rbbp8 (2 ;2), Zic3 (2 ;2), Runx1t1 (1.0 ;2), Trps1 (1.3 ;2), Smarca2 (1.1 ;2), Plag1 (1.3 ;2), Tmpo (1.1 ;2), Tcf15 (1.1 ;2), Zfhx3 (0.5;2), Mll3 (1.3;2), Prrx2 (1.1;2), Trp53 (1.1;2), Xab2 (1.1 ;2), Csrnp2 (1.0 ;2), Plagl2 (0.9;2), Hoxb3 (0.9;2), Med1 (1.1 ;2), Men1 (0.6;2), Usf1 (1.0 ;2), Aff1 (0.7;2), Gfra2 (1.1 ;3), Rxra (1.0;3), Klf12 (0.6;3), Nasp (1.4;3), Runx2 (1.2 ;3), Meox1 (1.0 ;4) |
| 2. Signaling | |
| Notch |
Dll3 (14 ;2), Aph1b//Aph1c (6 ;2), Dlk1 (3 ;0.6), Jag1 (3 ;2), Hey1 (2 ;0.8), Notch1 (2 ;2), Maml2 (2 ;2), Dll1 (2 ;3), Lfng (2 ;3), Sel1l (1.0 ;2), Numb (0.8;2), |
| Wnt | Frzb (22 ;3), Wnt5a (9 ;2), Wnt3 (5 ;2), Wnt2b (4 ;2), Dact1 (4 ;2), Wls (3 ;1.1), Lef1 (3 ;1.4), Fzd1 (3;1.1), Wnt2 (3;2), Axin2 (3 ;1.1), Lrrfip2 (2;2), Ctnnbip1 (2 ;1.2), Wnt5b (2 ;0.9), Rspo3 (2;1.0), Tcf4 (2 ;1.0), Apcdd1 (1.7 ;0.9) |
| TGF-β |
Lefty2 (5 ;2), Tgfb1 (5 ;1.2), Dcp1a (2;1.2), Fstl1 (3 ;1.0), |
| FGF |
Fgf3 (11 ;1.2), Fgf10 (5 ;0.7), Fgf4 (3 ;2), Fgfrl1 (2 ;1.0), Spred1 (6 ;1.3) |
| BMP | Bmp7 (7 ;1.0), Smad1 (6 ;2), Bmper (3 ;1.2), Fst (3 ;2), Tdgf1 (3 ;5), Smad5 (2 ;1.0), Usp9x (2;0.9), Egr1 (2;1.1), Cer1 (0.3;2), Twsg1 (1.2;2) |
| Retinoic acid | Cyp26a1 (7; 1), Rarb (1;2), Rarg (2. 2), Rxra (2.2), Rxrg (3; 2), |
| Others | Aplnr (34;2), Dlc1 (12 ;2), Gas1 (10 ;1.4), Gna14 (9 ;1.3), Klhl6 (9 ;3), Prkd1 (7 ;2), Rasgrp3 (4 ;2), Rftn1 (4 ;1.4) ; Apln (3 ;0.9), Gpr50 (3 ;1.0), Braf (3 ;1.0), Igfbp4 (3 ;2), Ptch1 (3 ;2), Neo1 (3 ;4), Gna13 (2 ;1.0), Peli1 (2 ;1.3), Flt1 (2 ;1.3), Ppp2ca (2 ;2), Dusp9 (2 ;2), Srgap3 (1.7 ;1.1), Pcsk5 (1.3;2), Igsf10 (0.6;2), Arfrp1 (1.3;2), Rnf111 (1.2;2), Ptpra (1.3;3), Dab2 (0.4 ;3), Egfr (1.0 ;3), Litaf (2;1.0), Gnai1 (2;1.0), S1pr5 (3;1.2), Adcyap1r1 (4;2), Adra2b (2;2), Adora2b (2;1.3), Ptpn1 (2;2), Col4a3bp (2;1.1), Gjc1 (2;1.4), Tiparp (3;1.0), Nck1 (2;1.3), Arl4d (3;1.2), Hrasls (2;0.9), Rabl3 (2;1.2), Rab8b (7;2), Ralgps2 (2;1.2), Wsb1 (2;2), Asb4 (4;0.6), Lrrk1 (2;1.0), Map3k3 (2;1.2), Pth1r (2;2), Arf1 (4;0.6), Rhot1 (2;1.0), Tlk1 (2;0.9), Rala (2;0.6), Dab1 (2;0.9), Yaf2 (2;1.0), Rbm14 (2;0.9), Atl1 (3;1.1), Lpar6 (1.8 ;1.2) |
| 3. Migration/ Polarity / Guidance | Fn1 (18 ;3), Cdh11 (12 ;1.3), Pcdh7 (11 ;2), Adam19 (12 ;3), Pdgfra (9 ;1.4), Epha4 (8 ;1.2), Nin (8 ;2), Cxcr4 (8 ;2), Flk1 (7 ;1.2), Cdh2/Ncad (6 ;1.2), L1cam (6 ;2), Mmp14 (5 ;1.1), Cdh4 (5 ;1.3), Vangl1 (5 ;0.9), Prtg (5 ;1.4), Pcdh8 (5 ;4), Cdc42ep4 (4 ;0.8), Efna3 (4 ;1.2), Sema5a (4 ;0.8), Slit3 (4 ;1.3),Vcan (4 ;0.9), Dock11 (4 ;2), Itga5 (4 ;2), Mfap4 (3 ;1.8), Fat3 (3 ;1.5), Agtrap (3;1.0), Pcdh18 (3 ;1.2), Nrp2 (3 ;1.0), Pafah1b1 (3;0.6), Efnb3 (3;0.9), Enah (3 ;3), Plxna2 (3 ;3), Lin7c (3;3), Timp3 (2;2), Robo1 (2 ;1.2), Anks1 (2 ;0.9), Adam10 (2 ;0.6), Adamts9 (2 ;0.8), Hipk2 (2 ;1.0), Gpc3 (2 ;1.8), Efna1 (2 ;0.8), Has2 (2 ;0.6), Ngfr (2;1.0), Dpysl5 (2;1.0), Afg3l2 (2;1.3), Epha1 (2;1.4), Adra2b (2 ;2), Pdgfrb (2 ;2), Fbn2 (2;2), Col27a1 (3;2), Gad1 (2;1.1), Gls (2;1.3), Itgb1 (2;1.4), Ilk (2;1.1), Evl (2;1.0), Cyfip1 (2;1.2), Pcdh19 (2 ;3), Efnb1 (1.3 ;2), Prickle1 (1.4;2), Itga8 (1.4 ;2), Ryk (0.8;2), Rgnef (0.3 ;2), Itgav (3;1.1), |
| 4. Others | Ifitm1 (8 ;1.4), Ptprj (6 ;1.2), Rnd3 (6 ;1.0), Chst2 (6 ;2), Man1c1 (6 ;2), Cbln1 (6 ;3),. Anpep (6 ;3), Ccnd2 (5 ;0.8), Usp3 (5 ;1.4), Rimbp2 (5 ;2), Dclk1 (5 ;3), Cachd1 (4 ;1.4), Vldlr (4 ;1.2), Birc6 (4;0.8), Wwp1 (4;0.6), Atp11c (3 ;0.4), Phlda2 (3 ;1.0), Chst7 (3 ;1.1), Atg5 (3;1.5), Ppic (3 ;1.0), Hs3st3b1 (3 ;0.9), Cask (3;1.4), Wars2 (3;1.3), Man1a2 (3;1.1), Chek1 (2 ;0.4), Grsf1 (2 ;0.6), Olfm1 (2 ;1.1), Alox15 (2 ;1.1), Cdkn1c (2 ;1.3), Pmp22 (2 ;0.8), Leprel1 (2 ;0.9), Stxbp5 (2 ;1.4), Tes (2 ;1.1), Galnt7 (2 ;1.0), Slc11a2 (2;1.1), Ipmk (2;1.1), Egln3 (2 ;1.5), Phldb2 (2 ;2), Laptm4b (2 ;2), Kif3a (2 ;2), Trim72 (2 ;2), Sbsn (2 ;3), Flnb (1.3 ;2), Bace2 (1.9 ;3), Slc38a5 (1.6 ;1.1), Grrp1 (1.7 ;0.9), Vamp4 (1.7 ;1.7), Snta1 (1.3 ;2), Gys1 (0.7 ;3), Txnrd2 (1.0 ;3), Actc1 (1.1 ;3), Tnnc1 (0.8;10), |
Description of genes displaying a change in expression of >2 fold between Mesp1-GFP+ and Mesp1-GFP- cells at E6.5 and 7.5. (Fold change over GFP- cells at E6.5 ; Fold change over GFP- cells at E7.5) in 2 independent biological replicates. A gene ontology analysis was used to classify the up-regulated genes in the following categories : Transcription Factors/Chromatin Remodelling, Signaling pathways, Migration/Polarity/Guidance and Others (all biological function related to early embryo development that we can not put in any previous classes). In bold (overexpressed in Mesp1 GOF ESC) Underlined (overexpressed in Mesp1-GFP ESC).