Table 1.
Regulated TADs are under control of distinct transcription factors and architectural proteins during ESC to NCC differentiation. +/−35 kb border enrichment of protein binding motifs and +/−100 kb enrichment of nFGFR1 border motif targeting. Paired T-Test, Bonferroni adjusted p < 0.05 highlighted +.
| NCC− | NCC− | NCC+ | NCC+ | ESC | NCC | NCC− | NCC− | NCC+ | NCC+ | ESC | NCC | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| # | Motif | 5’ | 3’ | 5’ | 3’ | FGFR1 | FGFR1 | # | Motif | 5’ | 3’ | 5’ | 3’ | FGFR1 | FGFR1 |
| 1 | CTCF | p = 0.000419 + | p = 0.016 | p = 0.0000406 + | p = 0.000155 + | 53 | E2F1 | p = 0.0000996 + | p = 0.00389 | ⏹ | |||||
| 2 | MYC..MAX | p = 0.00319 | p = 0.000136 + | p = 0.0000245 + | p = 0.00282 | ⏹ | 54 | Foxa2 | p = 0.00224 | p = 0.00302 | |||||
| 3 | NFIC | p = 0.0472 | p = 0.02 | p = 0.0286 | p = 0.00977 | 55 | FOXO3 | p = 0.0227 | p = 0.0302 | ||||||
| 4 | NFKB1 | p = 0.00632 | p = 0.0284 | p = 0.0252 | p = 0.0309 | 56 | Nkx2.5 | p = 0.000182 + | p = 0.0391 | ||||||
| 5 | Pdx1 | p = 0.0299 | p = 0.0415 | p = 0.0175 | p = 0.000532 | 57 | SRY | p = 0.0259 | p = 0.0192 | ||||||
| 6 | Spz1 | p = 0.0193 | p = 0.0059 | p = 0.0327 | p = 0.00452 | 58 | ESR1 | p = 0.0274 | p = 0.0311 | ||||||
| 7 | ZEB1 | p = 0.00383 | p = 0.0284 | p = 0.00849 | p = 0.0178 | ⏹ | 59 | FOXD1 | p = 0.0368 | p = 0.0465 | |||||
| 8 | ARID3A | p = 0.0343 | p = 0.0114 | p = 0.012 | 60 | HNF1B | p = 0.000173 + | p = 0.00459 | |||||||
| 9 | Mycn | p = 0.0126 | p = 0.0493 | p = 0.000000141 + | 61 | MEF2A | p = 0.000206 + | p = 0.00314 | |||||||
| 10 | PLAG1 | p = 0.0278 | p = 0.0181 | p = 0.00189 | ⏹ | 62 | PPARG | p = 0.00667 | p = 0.00881 | ||||||
| 11 | Ddit3..Cebpa | p = 0.0446 | p = 0.0394 | p = 0.000392 + | 63 | PPARG..RXRA | p = 0.0023 | p = 0.0238 | ⏹ | ⏹ | |||||
| 12 | ELK4 | p = 0.0359 | p = 0.0026 | p = 0.014 | 64 | SOX9 | p = 0.00105 | p = 0.0000956 + | |||||||
| 13 | Foxq1 | p = 0.00347 | p = 0.0172 | p = 0.0045 | 65 | SP1 | p = 0.0409 | p = 0.0304 | ⏹ | ⏹ | |||||
| 14 | HNF4A | p = 0.00214 | p = 0.0263 | p = 0.045 | 66 | TEAD1 | p = 0.0228 | p = 0.000765 | ⏹ | ⏹ | |||||
| 15 | NR1H2..RXRA | p = 0.00637 | p = 0.00468 | p = 0.0199 | 67 | Zfp423 | p = 0.0077 | p = 0.0218 | ⏹ | ||||||
| 16 | NR4A2 | p = 0.0227 | p = 0.00945 | p = 0.0194 | 68 | GATA2 | p = 0.0417 | p = 0.0358 | |||||||
| 17 | RXRA..VDR | p = 0.000555 | p = 0.0217 | p = 0.00115 | 69 | MAX | p = 0.00105 | p = 0.00151 | |||||||
| 18 | STAT1 | p = 0.0112 | p = 0.00069 | p = 0.00509 | 70 | Pax6 | p = 0.0327 | p = 0.0407 | ⏹ | ||||||
| 19 | AP1 | p = 0.0207 | p = 0.0125 | p = 0.0229 | 71 | RELA | p = 0.0199 | p = 0.0065 | |||||||
| 20 | Ar | p = 0.00165 | p = 0.00847 | p = 0.0004 + | 72 | SRF | p = 0.0021 | p = 0.0482 | |||||||
| 21 | REL | p = 0.0222 | p = 0.0168 | p = 0.0356 | 73 | YY1 | p = 0.0000987 + | p = 0.000421 + | |||||||
| 22 | RXR..RAR_DR5 | p = 0.016 | p = 0.0158 | p = 0.0087 | 74 | FOXI1 | p = 0.0234 | ⏹ | |||||||
| 23 | TAL1..TCF3 | p = 0.000705 | p = 0.0000833 + | p = 0.0165 | 75 | Hand1..Tcfe2a | p = 0.0165 | ||||||||
| 24 | Arnt | p = 0.00146 | p = 0.0000373 + | p = 0.0000167 + | ⏹ | 76 | Nr2e3 | p = 0.000295 + | |||||||
| 25 | BRCA1 | p = 0.0182 | p = 0.0445 | p = 0.000583 | ⏹ | 77 | SOX10 | p = 0.0436 | ⏹ | ||||||
| 26 | ESR2 | p = 0.0418 | p = 0.00483 | p = 0.00348 | 78 | TFAP2A | p = 0.0396 | ⏹ | |||||||
| 27 | FOXA1 | p = 0.00129 | p = 0.0203 | p = 0.025 | 79 | CREB1 | p = 0.00606 | ||||||||
| 28 | GABPA | p = 0.0000218 + | p = 0.0184 | p = 0.0000239 + | ⏹ | 80 | Evi1 | p = 0.0347 | |||||||
| 29 | GATA3 | p = 0.00391 | p = 0.00418 | p = 0.00013 + | 81 | FEV | p = 0.0112 | ⏹ | |||||||
| 30 | HNF1A | p = 0.00000372 + | p = 0.00921 | p = 0.0154 | 82 | FOXF2 | p = 0.00178 | ||||||||
| 31 | HOXA5 | p = 0.0255 | p = 0.00488 | p = 0.0218 | 83 | Mafb | p = 0.000463 | ||||||||
| 32 | INSM1 | p = 0.0216 | p = 0.0215 | p = 0.0231 | ⏹ | ⏹ | 84 | MZF1_5.13 | p = 0.00631 | ⏹ | ⏹ | ||||
| 33 | Lhx3 | p = 0.000149 + | p = 0.0029 | p = 0.0000534 + | 85 | NFIL3 | p = 0.000132 + | ||||||||
| 34 | NFE2L2 | p = 0.00466 | p = 0.00185 | p = 0.000788 | ⏹ | 86 | NHLH1 | p = 0.000326 + | ⏹ | ||||||
| 35 | Prrx2 | p = 0.0111 | p = 0.00459 | p = 0.00142 | 87 | NR3C1 | p = 0.0185 | ||||||||
| 36 | RUNX1 | p = 0.0419 | p = 0.0281 | p = 0.0000178 + | ⏹ | 88 | Pax4 | p = 0.0243 | ⏹ | ⏹ | |||||
| 37 | Tal1..Gata1 | p = 0.0207 | p = 0.00127 | p = 0.0216 | ⏹ | ⏹ | 89 | Pax5 | p = 0.000701 | ⏹ | ⏹ | ||||
| 38 | Tcfcp2l1 | p = 0.0293 | p = 0.0257 | p = 0.0397 | ⏹ | 90 | RORA_1 | p = 0.00413 | |||||||
| 39 | TLX1..NFIC | p = 0.0342 | p = 0.0015 | p = 0.0269 | ⏹ | 91 | RREB1 | p = 0.0149 | ⏹ | ||||||
| 40 | ZNF354C | p = 0.000762 | p = 0.0303 | p = 0.00751 | ⏹ | ⏹ | 92 | Sox17 | p = 0.00000485 + | ||||||
| 41 | En1 | p = 0.0004 + | p = 0.0447 | ⏹ | 93 | TP53 | p = 0.00666 | ⏹ | |||||||
| 42 | Myc | p = 0.000751 | p = 0.00337 | ⏹ | 94 | NF.kappaB | p = 0.0106 | ||||||||
| 43 | MZF1_1.4 | p = 0.00249 | p = 0.022 | ⏹ | ⏹ | 95 | Pou5f1 | p = 0.00291 | ⏹ | ||||||
| 44 | Zfx | p = 0.0174 | p = 0.00635 | ⏹ | ⏹ | 96 | CEBPA | p = 0.000467 | ⏹ | ||||||
| 45 | Sox5 | p = 0.000105 + | p = 0.00132 | 97 | Foxd3 | p = 0.0281 | ⏹ | ||||||||
| 46 | Stat3 | p = 0.0407 | p = 0.0454 | ⏹ | 98 | Klf4 | p = 0.0115 | ⏹ | ⏹ | ||||||
| 47 | Esrrb | p = 0.0182 | p = 0.0191 | 99 | NFYA | p = 0.00374 | |||||||||
| 48 | Myf | p = 0.0118 | p = 0.00443 | ⏹ | 100 | Nkx3.2 | p = 0.0000242 + | ||||||||
| 49 | NFATC2 | p = 0.00737 | p = 0.0249 | 101 | PBX1 | p = 0.00908 | |||||||||
| 50 | REST | p = 0.0238 | p = 0.00427 | ⏹ | 102 | Sox2 | p = 0.0404 | ⏹ | |||||||
| 51 | znf143 | p = 0.0421 | p = 0.0303 | ⏹ | 103 | T | p = 0.0156 | ⏹ | |||||||
| 52 | Arnt..Ahr | p = 0.00464 | p = 0.0466 | ⏹ |