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. Author manuscript; available in PMC: 2015 Nov 16.
Published in final edited form as: Dev Dyn. 2013 Feb 8;242(3):230–253. doi: 10.1002/dvdy.23920

TABLE 2. Microarray expression analysis.

Fold change in gene expression following 24h, 48h and 72h of transgene induction

Gene UniGene# 24h 43h 72h Gene UniGene# 24h 43h 72h Gene UniGene# 24h 43h 72h Gene UniGene# 24h 43h 72h
Factors associated with pluripotency Neural Patterning Cell Surface Cell Cycle
Eed Mm.380914 - −3.6 −4 Eya1 Mm.250185 - 7 11.6 Slit1 Mm.40322 - 8.6 - G1/S checkpoint
Eras Mm.250895 −4.9 −33.9 −65.8 Foxa2 Mm.938 - 21.2 13.7 Slit2 Mm.289739 - 3.5 8.1 Cdkn1a Mm.195663 - 5.0 3.0
Fbxo15 Mm.28369 - - −14.4 Foxd1 Mm.347441 - 11.1 23.9 Synpr Mm.37515 - 47.5 144.9 Suv39h1 Mm.9244 2.9 −35.7 −17.6
Foxd3 Mm.4758 - −12.4 - Foxg1 Mm.390496 - - 13 Unc5c Mm.24430 - 12.2 31.8 Trp53 Mm.222 - −3.3 −5.5
Klf2 Mm.26938 - −27.8 −40.7 Foxp2 Mm.332919 - 46.7 438 Signaling
Klf4 Mm.4325 −8.4 −15.5 −22.9 Hoxa1 Mm.l97 24.3 - - Bmp1 Mm.27757 2.7 5.8 4.7 G1/S
Nanog Mm.440503 −4.7 −22.9 −33.1 Hoxa2 Mm.131 - 18 24.4 Bmp4 Mm.6813 −6.2 - −8.1 Btg2 Mm.392646 3.6 4.0 -
Pou5f1 Mm.17031 −4.8 −27.1 −38.2 Hoxa4 Mm.439647 - 21.9 - Dll1 Mm.4875 15.8 8.3 4.2 Cables1 Mm.40717 - 2.3 2.7
Sox2 Mm.65396 - - −2.7 Hoxb1 Mm.890 10.7 16.5 - Dll3 Mm.12896 19.9 20.5 5.5 Ccnd1 Mm.l6110 −2.2 −6.1 −6.9
Tert Mm.10109 - - −3.5 Hoxb2 Mm.281153 33.5 92.7 73.4 Dll4 Mm.143719 58.2 56 18.8 Ccne1 Mm.l6110 −6.1 −6.9
Zic3 Mm.255890 −2.2 −5.5 −10.3 Hoxb4 Mm.3546 22.6 43.3 45.6 Dner Mm.292560 - 12 23 Cdca5 Mm.23526 - −3.1 −3.7
Hoxd9 Mm.26544 - - 10.6 Fgf4 Mm.4956 −4.7 −48.3 −8.1 Cdkn1a Mm.195663 - 5.0 3.0
lrx1 Mm.316056 - 4.2 6.5 Fgf5 Mm.5505 - - - Ccnd2 Mm.333406 - 3.0 6.0
lrx3 Mm.238044 8.5 39.9 42.6 Fgf12 Mm.7996 - 20.9 30.6 Gspt1 Mm.325827 - 2.1 2.1
lsl1 Mm.42242 10.1 89.3 197 Fgf13 Mm.7995 - - 5.2
Neural Differentiation Lhx2 Mm.142856 54.8 144.7 192.1 Fgf15 Mm.3904 - 3.6 - S
Ascl1 Mm.136217 - - - Onecut1 Mm.303355 18.3 13 27.3 Fgf17 Mm.12814 −12.9 −91.7 −55.6 Brca2 Mm.236256 - −2.8 −3.4
Brn2 (Pou3f2) Mm.l29387 - - 7.2 Onecut2 Mm.234723 8 120.6 184.5 Frzb Mm.427436 - 46.3 35.9 Cdt1 Mm.21873 - −2.8 −3.7
Dclk1 Mm.393242 - 41 119.9 Six1 Mm.4645 - 5.2 15.5 Gli1 Mm.391450 - - −14.6 Pola1 Mm.l923 - −2.5 −3.0
Dcx Mm.l2871 8.2 193.8 359.4 Gli2 Mm.273292 −2.9 - −3.8 Skp2 Mm.35584 −2.5 −2.2 −2.3
Ebf2 Mm.319947 95.7 158.5 96.3 Gmnn Mm.12239 - −2.7 −3
Ebf3 Mm.258708 47.7 186.2 281.9 Cell Surface Hes5 Mm.137268 21 384.7 203.2 G2/M Checkpoint
Ednrb Mm.229532 - - 194.6 Cdh1 Mm.35605 - −8.9 −10.7 Hes6 Mm.280029 17.9 7.5 2.6 cdk1 Mm.281367 - - -
Elavl3 Mm.390167 - 30.9 35 Cdh2 Mm.257437 - 18.3 31.8 Hhat Mm.145857 3.6 5.2 4.7 Cdt1 Mm.21873 - −2.8 −3.7
Elavl4 Mm.3970 - 75 143.6 Dab1 Mm.289682 - 2.9 5.4 Id2 Mm.34871 - 2.9 - Pola1 Mm.l923 - −2.5 −3.0
Fabp7 Mm.3644 49.4 201.1 443.8 Dcc Mm.l67882 - 61.5 114 Id3 Mm.110 −10.9 - - Tipin Mm.l96219 - −2.6 −3.4
Gfap Mm.1239 - - - Efna1 Mm.15675 - - - Id4 Mm.458006 5.8 20.7 14.8
Isl1 Mm.42242 10.1 89.3 197 Efna5 Mm.7978 - 5.2 6.6 Igf1r Mm.275742 - 3.1 -
Lhx2 Mm.142856 54.8 144.7 192.1 Efnb1 Mm.3374 12.7 2.9 - Igf2bp3 Mm.281018 - 3.4 2.3 G2/M
Myt1 Mm.458718 - 24 66.2 Efnb2 Mm.209813 - 8.3 9.6 Igfbp2 Mm.141936 - −2.6 −4.9 Birc5 Mm.8552 - −3.4 −5.0
Ncam1 Mm.4974 - - 6.8 Epha1 Mm.133330 - - −33.6 Igfbp4 Mm.233799 - 25.4 13.5 Ccnb2 Mm.22592 - - −3.1
Nefh Mm.298283 −2.3 −2.4 −2.6 Epha2 Mm.2581 - −6 −6 Igfbp5 Mm.405761 - 18.1 25.3 Cdc25b Mm.38444 4.6 - -
Nefl Mm.1956 −2.7 4.2 23.4 Epha3 Mm.1977 - −4.3 - Igfbp7 Mm.233470 −3.2 - −4.9 Cdkn1a Mm.l95663 - 5.0 3.0
Nefm Mm.390700 - - 257.7 Epha4 Mm.400747 −2.2 2.2 2 Igfbpl1 Mm.3919 9.4 67.1 58 Gadd45g Mm.281298 9.6 - -
Neurod1 Mm.4636 9.7 11.5 10.2 Epha5 Mm.137991 - 18 43.7 Inhbb Mm.3092 −11.5 −43.7 −131 Gpc1 Mm.297976 - 3.6 3.9
Neurod4 Mm.10695 33 206 127.8 Ephb1 Mm.22897 - - - Jag1 Mm.22398 - 6.2 3.8 Hmga2 Mm.l57190 - - 3.0
Neurog1 Mm.266665 74.4 74 42.7 Ephb2 Mm.250981 - 2.6 3.7 Nlk Mm.9001 - - 2.1
Neurog2 Mm.42017 - 4.4 3.8 Esrrg Mm.89989 - - 98 Nodal Mm.57195 −2.2 −14 −21.5
Nhlh1 Mm.2474 27.4 101.5 105.4 Itga1 Mm.317280 - −4.8 - Notch1 Mm.290610 - 2.8 - M
Nhlh2 Mm.137286 - 109.9 204.3 Itga5 Mm.16234 - - −3.1 Notch2 Mm.254017 3 2.7 - Aurka Mm.249363 - −2.9 −3.7
Nr2f1 Mm.439653 - 90.1 197.9 Itga6 Mm.225096 - −2.5 4.6 Notch4 Mm.l73813 - −4 - Birc5 Mm.8552 - −3.4 −5.0
Nr2f2 Mm.l58143 - 74.9 106.2 Netrin1 Mm.39095 −3.2 14.2 - Ntrk1 Mm.80682 - 11.4 - Bub1b Mm.29133 - −4.2 −4.8
Nrxn1 Mm.480021 - 76.3 227.6 Ntrk1 Mm.80682 - 11.4 - Ntrk2 Mm.l30054 - - - Ccdc99 Mm.l94368 - −2.4 −3.0
Olig1 Mm.39300 - - - Ntrk3 Mm.421361 - 6.2 22 Ntrk3 Mm.33496 - 6.2 22 Ccnb1 Mm.260114 - −3.3 −4.5
Olig2 Mm.37289 - - - Pcdh8 Mm.390715 10.5 155.1 108 Sfrp2 Mm.19155 - - 12.4 Ccnb2 Mm.22592 - - −3.1
Olig3 Mm.156946 4.5 19.6 - Plxna1 Mm.3789 - 3 2.3 Smad1 Mm.223717 - - 4.2 Ccng2 Mm.3527 3.7 6.2 5.6
Pax3 Mm.1371 20.2 177 98.3 Plxna2 Mm.2251 7.1 64.1 58.1 Smad2 Mm.391091 - - 2.1 Cdc20 Mm.289747 - −3.0 −4.2
Pax6 Mm.33870 - 10.8 23.1 Plxnb1 Mm.53862 - 2.8 2.5 Smad3 Mm.7320 2.8 2.8 - Cep55 Mm.9916 - −6.1 −6.3
Prom1 Mm.6250 - 10 0 Plxnc1 Mm.256712 - 10 11.6 Smad4 Mm.100399 - - - Ercc6l Mm.31911 - −4.9 −6.6
Reln Mm.425236 - 40.8 43.3 Plxnd1 Mm.3085 - 5.9 6.9 Smad7 Mm.34407 −5.1 −8.7 −6.6 F630043A04Rik Mm.30173 - −2.3 −3.9
Rest Mm.28840 −4.5 −6.4 −15.6 Robo1 Mm.310772 - 4.6 6.3 Socs2 Mm.4132 −2.1 −4.4 −17.2 Fbxo5 Mm.197520 - −2.9 −4.0
Ret Mm.57199 - 96.8 251.1 Sema3c Mn.5071 - - 12.8 Socs6 Mm.91920 - 4.7 5.2 Hells Mm.57223 - −3.5 −4.0
Runx1t1 Mm.4909 - 5.6 19.3 Sema3d Mm.89313 - - 13.8 Stat1 Mm.277406 3.9 - - Incenp Mm.29755 - −2.7 −3.1
Sox11 Mm.41702 4.2 34.7 43.1 Sema4a Mm.439752 - −5.4 −22.2 Stat3 Mm.249934 - −2 −2 Ndc80 Mm.225956 - −2.6 −3.3
Sox3 Mm.35784 9.9 15.7 11.9 Sema4b Mm.275909 - - −2.5 Stat6 Mm.121721 - −5.3 −11.4 Nsk2 Mm.33773 - −2.8 −4.0
Sox4 Mm.240627 6.1 13.2 18 Sema4c Mm.29558 - - 9.9 Tcf3 Mm.440067 - −2.3 - Nup43 Mm.299887 - −3.3 −3.7
Tubb3 Mm.40068 - 7.7 8.7 Sema4f Mm.270543 - - 6.4 Tcf4 Mm.4269 - 6.8 5.1 Plk1 Mm.16525 2.0 −2.5 −3.5
Zeb1 Mm.3929 - 6.4 6.5 Sema5a Mm.260374 −3.5 4.3 4 Wnt5a Mm.287544 20.2 13.4 6.4 Rcc2 Mm.253 - −4.4 −5.1
Zfp238 Mm.480309 6.6 11.1 7.8 Sema6a Mm.40909 - - 4.7 Wnt8b Mm558 7.9 8.6 - Spc24 Mm.295642 - −3.0 −3.3
Zic1 Mm.335350 53.4 40.7 31 Sema6d Mm.330536 11.3 37.7 44.9 Zeb2 Mm.35353 6 39.4 27.8 Tipin Mm.l96219 - −2.6 −3.4