Supplementary Table 1 Sources of Biological Material and Data

Islet specific gene expression

Supplementary Table 1 Sources of Biological Material and Data

At E12.5 pools of 27 Ngn3-/-, 25 wildtype pancreases were analyzed on MGU74Av2 arrays and pools of 8 on Ngn3-/- pancreas and 11 pancreases on MOE430 2.0 arrays. Pools of 4 or 5 pancreases were analyzed at E15.5 on both platforms and individual pancreases at E18.5. All data can be accessed at:

https://www.cbil.upenn.edu/RADQuerier/php/displayStudy.php?study_id=1330

E12.5 pancreas / E15.5 CD1
pancreas / E18.5 CD1
pancreas / Islets / Pancreatic Cell Lines
Platform / Wild- type / Ngn3 (-/-) / Wild- type / Ngn3 (-/-) / Wild- type / Ngn3 (-/-) / CD1
Mouse / Alpha TC1-6 / ßTC3 / mPAC
MGU74Av2 / 1 / 1 / 1 / 1 / ND / ND / 1 / 1 / 1 / ND
MOE U133 Plus 2 / 1 / 1 / 2 / 2 / 1 / 1 / 2 / 2 / 2 / 2

Supplementary Table 2. E12.5 gene transcripts >3-fold down-regulated ngn3(-/-) versus wild type pancreas

Gene Symbol / Fold Change / Raw WT / Genbank ID
Gcg / 349.6 / 10044 / AF276754
Tmem27 / 163.3 / 1721 / AI314694
Slc38a5 / 131.6 / 779 / BG066984
Pyy / 35.3 / 1190 / BC010821
Chgb / 18.4 / 289 / NM_007694
Iapp / 14.6 / 191 / BB434117
Arx / 13.3 / 36 / BB322201
Neurod1 / 11.6 / 257 / BM116592
Trip12 / 8.3 / 333 / AV351572
Chga / 7.7 / 100 / NM_007693
9.13E+15 / 7.4 / 299 / BB357317
9130009I01Rik / 7.4 / 210 / AI448485
Hnrpab / 7.2 / 13382 / L36663
--- / 7.2 / 251 / BB521792
Soat1 / 7.0 / 387 / BG064396
--- / 6.9 / 71 / BM938362
--- / 6.4 / 1635 / BM119182
Nepn / 6.4 / 100 / NM_025684
Setd8 / 6.2 / 94 / BB491571
Arid5b / 6.2 / 196 / BB257077
Ddx6 / 6.1 / 3094 / BC021452
Fubp1 / 6.1 / 427 / BB488001
Rest / 6.1 / 52 / BI153474
Pcsk2 / 6.0 / 79 / AK018159
Kif23 / 5.9 / 101 / NM_024245
E130108L08Rik / 5.9 / 441 / BB283604
Pcsk2 / 5.8 / 32 / NM_008792
--- / 5.7 / 131 / BM247599
--- / 5.7 / 333 / BB458938
Bub3 / 5.7 / 189 / BB449877
9430047L24Rik / 5.7 / 387 / BB462600
Huwe1 / 5.6 / 326 / BB531571
LOC100041035 / 5.5 / 64 / BC028435
Baz2b / 5.4 / 179 / BG067686
--- / 5.3 / 468 / BG143413
Nfia / 5.3 / 676 / BB485864
Foxp2 / 5.2 / 333 / BB490576
--- / 5.2 / 105 / BG064109
Iapp / 5.2 / 158 / BM569571
Edem3 / 4.9 / 188 / BB549831
--- / 4.9 / 296 / BG067768
St8sia3 / 4.9 / 29 / BB360510
--- / 4.9 / 760 / BB304523
D630030B22Rik / 4.8 / 210 / BB500664
Zfp192 / 4.8 / 180 / BB483373
Csnk2a1 /// LOC100039026 / 4.8 / 380 / BB283759
Sfrs11 / 4.8 / 617 / BB210853
Qk / 4.8 / 272 / AW060288
--- / 4.7 / 110 / BM122005
Zfp800 / 4.7 / 211 / BG063017
BC016423 / 4.6 / 258 / AU041573
Hdac2 / 4.6 / 562 / BB461532
--- / 4.6 / 162 / C76273
6720422M22Rik / 4.5 / 60 / BB051012
Ppp3cb / 4.5 / 279 / BG076035
Cartpt / 4.4 / 32 / NM_013732
4932415G12Rik / 4.4 / 50 / AK015136
Colec10 / 4.4 / 175 / BB765132
--- / 4.4 / 130 / BG073901
Zfp398 / 4.4 / 85 / BB199476
Ercc6 / 4.4 / 427 / BB479244
Iapp / 4.4 / 31 / BM569571
AI585793 / 4.4 / 249 / AV381143
Brctd1 / 4.4 / 313 / AK012253
9430010O03Rik / 4.3 / 799 / BG093966
--- / 4.3 / 339 / BB361936
Nov / 4.3 / 145 / X96585
Pcsk2 / 4.3 / 67 / AI839700
--- / 4.3 / 292 / BB733992
Zfp458 / 4.3 / 521 / AV276001
--- / 4.3 / 367 / BB051025
--- / 4.3 / 348 / BB425852
--- / 4.3 / 604 / BC019134
Ncoa7 / 4.3 / 247 / BB529533
Robo1 / 4.2 / 385 / AV319139
2610024E20Rik / 4.2 / 568 / BB556313
6430706D22Rik / 4.2 / 188 / BC004768
--- / 4.2 / 147 / BM219492
Shprh / 4.2 / 171 / BB282220
Msi2 / 4.1 / 555 / BQ174527
Mbtps1 / 4.1 / 30 / AK002809
--- / 4.1 / 283 / BB168460
Klhl24 / 4.1 / 1294 / BB328076
Onecut2 / 4.1 / 58 / BE996518
2410089E03Rik / 4.1 / 55 / AW124111
D030022P06Rik / 4.1 / 456 / BB228771
A730016A17 / 4.0 / 569 / BB246786
Cpd /// LOC100046781 / 4.0 / 1444 / NM_007754
Msi2 / 3.9 / 258 / BQ174527
Mtss1 / 3.9 / 415 / BB157298
--- / 3.9 / 54 / AW824326
Bat2d / 3.9 / 457 / BB541200
--- / 3.9 / 710 / BB373816
--- / 3.9 / 123 / BB435965
Samd5 / 3.9 / 1231 / BB308071
2610011E03Rik / 3.9 / 339 / AK011375
Atrx / 3.9 / 572 / BB825830
Cbx5 / 3.9 / 483 / NM_007626
--- / 3.9 / 52 / BB559647
Mbp / 3.8 / 165 / BB181247
--- / 3.8 / 627 / BB467267
Rbm27 / 3.8 / 58 / BG069634
Exoc5 / 3.8 / 261 / BB408277
Gas2l3 /// LOC100047967 / 3.8 / 1084 / BB770972
Usp7 / 3.8 / 169 / C77542
--- / 3.8 / 156 / BB376943
--- / 3.8 / 155 / AI504618
--- / 3.8 / 235 / BB134628
Ece1 / 3.8 / 886 / AI551117
--- / 3.7 / 1520 / BI651113
--- / 3.7 / 64 / BB207273
Col4a3bp / 3.7 / 588 / BC016197
Gas2l3 /// LOC100047967 / 3.7 / 2141 / BB770972
Trove2 / 3.7 / 1441 / BQ176653
Gch1 / 3.7 / 38 / BB698398
D5Ertd579e / 3.7 / 99 / BB175385
Gna13 / 3.7 / 404 / BI662324
LOC100045887 /// Sfpq / 3.7 / 10890 / BI738328
--- / 3.7 / 128 / BB534083
--- / 3.7 / 209 / BF147024
4931406P16Rik / 3.6 / 529 / BB764190
--- / 3.6 / 46 / BM221185
Zeb2 / 3.6 / 1694 / NM_015753
Cpsf6 / 3.6 / 4733 / BB335087
Zdhhc2 / 3.6 / 484 / BB224658
--- / 3.6 / 98 / BM237637
Etnk1 / 3.5 / 256 / BG867902
Ube3a / 3.5 / 26 / BB224620
Peli2 / 3.5 / 73 / BB337121
Rap2b / 3.5 / 280 / BB645629
Ppm1k / 3.5 / 668 / AI482429
Rc3h2 / 3.5 / 1747 / BB527789
A430105P17Rik / 3.5 / 34 / AK020769
Crim1 / 3.5 / 841 / AK018666
Braf / 3.5 / 591 / BB332976
Dsg2 /// LOC100044500 / 3.5 / 19 / BC020144
--- / 3.5 / 365 / BB041834
--- / 3.5 / 78 / BE955100
--- / 3.5 / 235 / BB155176
AI426953 / 3.4 / 146 / BE632903
--- / 3.4 / 21 / BB073651
Cxadr / 3.4 / 245 / AK004908
--- / 3.4 / 282 / BB209527
Rhobtb3 / 3.4 / 699 / AV047988
--- / 3.4 / 136 / BG094166
Scmh1 / 3.4 / 474 / BB297140
Klf7 / 3.4 / 338 / BB524597
Cttnbp2 / 3.4 / 37 / AW488544
Napg / 3.4 / 391 / BG076030
--- / 3.4 / 75 / BB056087
6430511F03 / 3.4 / 329 / BE947483
Fkbp15 / 3.4 / 18 / BB409627
BC057627 / 3.4 / 1239 / BG076273
Dip2c / 3.4 / 51 / BM238597
--- / 3.3 / 2949 / BG976607
D17Ertd165e / 3.3 / 558 / BG066166
Pot1a / 3.3 / 99 / AV014607
Atp8a1 / 3.3 / 594 / BB303874
3110047M12Rik / 3.3 / 98 / BB164159
Stk25 / 3.3 / 133 / NM_021537
--- / 3.3 / 105 / AU040352
Msi2 / 3.3 / 143 / BI696168
Bat2d / 3.3 / 114 / BI083627
Zfp207 / 3.3 / 910 / AI646720
Ube2w / 3.3 / 367 / BB541252
Bach1 / 3.3 / 814 / NM_007520
--- / 3.3 / 226 / BB449580
6030451C04Rik / 3.3 / 353 / BB040767
--- / 3.3 / 52 / AA103376
Onecut2 / 3.2 / 226 / BB667396
Reep3 / 3.2 / 759 / AK005026
--- / 3.2 / 312 / BB469592
Paip1 / 3.2 / 76 / BC019726
Meis1 / 3.2 / 117 / BB425010
Nr2c2 / 3.2 / 720 / AU066920
Rbm5 / 3.2 / 1497 / BE446879
Cacna2d1 / 3.2 / 162 / BB559910
Crkrs / 3.2 / 287 / BG070845
Peli1 / 3.2 / 59 / BB542335
Galnt7 / 3.2 / 339 / AF349573
Nrip1 / 3.2 / 725 / NM_008735
Phc3 / 3.2 / 218 / BG095232
Krit1 / 3.1 / 81 / BI793814
Ube3c / 3.1 / 218 / BB296513
--- / 3.1 / 125 / BB207814
9330159M07Rik / 3.1 / 178 / BB214614
Tra2a / 3.1 / 1350 / BB667153
Pcdh21 / 3.1 / 14 / NM_130878
--- / 3.1 / 55 / C78030
2310035C23Rik / 3.1 / 200 / BB073349
LOC100048479 /// Onecut1 / 3.1 / 75 / NM_008262
--- / 3.1 / 206 / BB476118
1110028C15Rik / 3.1 / 438 / AI595843
Rapgef5 / 3.1 / 254 / BM230524
Pds5a / 3.1 / 1348 / BG074304
--- / 3.1 / 133 / BB205578
--- / 3.1 / 232 / AU067772
Prelid2 / 3.1 / 54 / BG072196
--- / 3.0 / 1408 / BB380864
Abcb10 / 3.0 / 352 / AV382118
--- / 3.0 / 284 / AW556563
Gnas / 3.0 / 659 / AW048640
Mia3 / 3.0 / 563 / AI552688

Supplementary Table 3. E15.5 gene transcripts >3-fold down-regulated ngn3(-/-) versus wild-type pancreas

Gene Symbol / Fold Change / Raw WT / Genbank ID
Iapp / 287.2 / 2958 / BB434117
Gcg / 212.3 / 3128 / AF276754
Iapp / 184.0 / 1361 / BM569571
Ins2 / 157.5 / 4664 / NM_008387
Iapp / 148.6 / 5999 / BM569571
Ins1 / 93.4 / 2903 / NM_008386
Pyy / 68.0 / 1398 / BC010821
Neurod1 / 65.8 / 947 / BM116592
Arx / 58.0 / 140 / BB322201
Chgb / 57.1 / 2849 / NM_007694
Slc38a5 / 41.9 / 238 / BG066984
Tmem27 / 35.7 / 655 / AI314694
1700086L19Rik / 32.4 / 239 / BI526033
Pcsk2 / 23.0 / 170 / NM_008792
Chga / 16.1 / 240 / NM_007693
Insm1 / 14.8 / 1135 / BB468410
Xist / 14.8 / 9735 / L04961
Pcsk2 / 14.1 / 252 / AK018159
Neurog3 / 13.8 / 81 / NM_009719
--- / 13.3 / 115 / BB336256
Neurod1 / 11.0 / 142 / BM116592
Pcsk2 / 10.3 / 164 / AI839700
Pcsk2 / 10.3 / 118 / BB357975
Insm1 / 9.5 / 293 / NM_016889
Sst / 9.0 / 39 / NM_009215
--- / 8.4 / 796 / BI794694
Syt13 / 7.5 / 203 / BB244585
Scg3 / 6.9 / 707 / NM_009130
Xist / 6.9 / 3689 / BG806300
AI987662 / 6.7 / 67 / AV282151
Gja9 / 6.2 / 59 / BI737842
G6pc2 / 6.0 / 98 / Z47787
3100002J23Rik / 5.5 / 109 / AK013920
Nol4 / 5.5 / 40 / AV323033
St18 / 5.2 / 64 / BB178719
Pax6 / 5.2 / 52 / BC011272
Slc7a14 / 5.1 / 62 / AI429745
Neurog3 / 5.0 / 892 / AK008017
Baiap3 / 5.0 / 228 / BC022659
Cadps / 4.7 / 150 / NM_012061
--- / 4.2 / 101 / BI788635
Xist / 4.1 / 506 / L04961
BC006965 / 4.0 / 45 / BB834573
Gng4 / 3.8 / 98 / AV347903
Myt1 / 3.8 / 142 / NM_008665
Iapp / 3.8 / 145 / BB434117
Ghrl / 3.8 / 26 / AB035701
Sytl4 / 3.6 / 131 / NM_013757
4930544G21Rik / 3.6 / 113 / AV327549
Isl1 / 3.3 / 608 / BQ176915
--- / 3.1 / 169 / BQ175796
4930488E11Rik /// LOC100034363 / 3.1 / 683 / AW912417
Gch1 / 3.1 / 62 / BB698398
Fev / 3.0 / 64 / AY049085

Supplementary Table 4. E18.5 gene transcripts >3-fold down-regulated ngn3(-/-) versus wild-type pancreas

Gene Symbol / Fold Change / Raw WT / Genbank ID
Gcg / 1364.0 / 12001 / AF276754
Iapp / 965.0 / 5211 / BM569571
Iapp / 805.0 / 8211 / BB434117
Ins2 / 497.7 / 15329 / NM_008387
Ins1 / 405.0 / 13650 / NM_008386
Ddx3y / 167.6 / 1391 / AA210261
Sst / 165.1 / 1288 / NM_009215
Chgb / 97.0 / 718 / NM_007694
Iapp / 94.0 / 3242 / BM569571
Eif2s3y / 71.3 / 671 / NM_012011
Tmem27 / 66.5 / 572 / AI314694
Pyy / 64.3 / 1099 / BC010821
Pcsk2 / 62.9 / 321 / NM_008792
Ddx3y / 56.7 / 527 / AA210261
G6pc2 / 43.9 / 241 / Z47787
Chga / 43.2 / 721 / NM_007693
Ddx3y / 36.7 / 590 / AA210261
Neurod1 / 33.6 / 222 / BM116592
Fga / 33.2 / 325 / BC005467
Scg3 / 31.7 / 482 / NM_009130
2310014L17Rik / 31.7 / 184 / AV232798
Jarid1d / 29.9 / 174 / AF127244
--- / 29.9 / 149 / BB336256
Wbscr14, ChREBP, Mlxipl / 26.6 / 101 / AF245479
Baiap3 / 25.2 / 91 / BC022659
Pcsk2 / 23.6 / 156 / AI839700
Ahsg / 21.0 / 175 / AI256465
4930544G21Rik / 20.3 / 146 / AV327549
Disp2 / 19.3 / 131 / BB023743
Slc30a8 / 18.6 / 95 / BB433667
Afp / 18.0 / 459 / NM_007423
Apoa1 / 17.2 / 91 / AI527359
2310014L17Rik / 16.2 / 91 / AK009344
4933407O12Rik / 15.4 / 75 / AI481193
Upb1 / 14.9 / 76 / NM_133995
Uty / 14.4 / 112 / BB742957
A230057G18Rik / 14.1 / 110 / AV221928
Afp / 13.4 / 4205 / NM_007423
Insm1 / 13.2 / 141 / NM_016889
Ngp / 12.7 / 101 / NM_008694
Insm1 / 12.6 / 375 / BB468410
1700086L19Rik / 12.0 / 80 / BI526033
Iapp / 11.0 / 78 / BB434117
Fmod / 9.6 / 51 / BB483571
Gja9 / 9.6 / 82 / BI737842
Lingo1 / 9.2 / 80 / BB078751
Fgb / 9.2 / 101 / AK011118
Add2 / 9.1 / 54 / AF100423
4930511H11Rik / 9.0 / 44 / AV265787
Isl1 / 8.9 / 107 / BQ176915
Pax6 / 8.8 / 67 / BC011272
--- / 8.6 / 62 / BM121819
Hoxd3 / 8.6 / 59 / NM_010468
St8sia5 / 8.5 / 41 / NM_013666
Afp / 8.5 / 1582 / AV124668
Arrdc3 / 8.5 / 166 / AW556597
Isl1 / 8.4 / 176 / BQ176915
Alb / 8.4 / 1743 / BC024643
Sytl4 / 8.3 / 184 / NM_013757
AI987662 / 8.3 / 66 / AV282151
Dnmt3a / 8.2 / 88 / BB795491
Grm2 / 8.1 / 58 / AK015353
Efcab1 / 8.1 / 47 / AV307860
Fgg / 8.0 / 241 / NM_133862
--- / 8.0 / 160 / AV354142
Apoh / 8.0 / 65 / NM_013475
--- / 8.0 / 49 / BG070203
Neurod1 / 7.9 / 79 / BM116592
Ppy / 7.8 / 278 / NM_008918
Ppp1r1a / 7.8 / 78 / NM_021391
Nelf / 7.8 / 20 / BB266960
Cd5l / 7.7 / 39 / NM_009690
Cadps / 7.7 / 70 / NM_012061
Lrig1 / 7.6 / 61 / AW557176
Igsf1 / 7.6 / 53 / BB023061
Akap10 / 7.6 / 171 / AK005325
Scgn / 7.5 / 177 / BC016093
Tmprss6 / 7.3 / 65 / AK004939
Tmc8 / 7.3 / 44 / BB211543
Fars2 / 7.2 / 104 / BB530332
Pvr / 7.2 / 20 / BB049138
Pcdhb17 / 7.1 / 51 / NM_053142
Lrp11 / 7.1 / 127 / BB435348
1100001E04Rik / 7.1 / 54 / BB367590
2310050B05Rik / 7.1 / 67 / AV381718
Ceacam1 / 7.1 / 50 / X67278
4930488B01Rik / 7.0 / 50 / AK015642
2700089E24Rik / 7.0 / 437 / AV030118
Tob2 / 7.0 / 35 / AK013833
4930563E22Rik / 7.0 / 31 / BB016642
--- / 7.0 / 42 / BM235748
Uqcrq / 6.9 / 51 / BF139190
C79267 / 6.8 / 42 / BG066466
2610507I01Rik / 6.7 / 39 / BI732990
Syt13 / 6.7 / 137 / BB244585
Tnfrsf11a / 6.6 / 57 / AK020374
Flvcr2 / 6.6 / 72 / BC011209
Spock2 / 6.6 / 215 / BM117672
Slc7a14 / 6.5 / 51 / AI429745
Slc2a5 / 6.5 / 88 / NM_019741
4933412E24Rik / 6.4 / 51 / AK016789
Chic1 / 6.4 / 135 / BG065782
Ghrl / 6.3 / 154 / AB035701
Gtf3c1 / 6.2 / 59 / BB821611
Npy / 6.2 / 233 / NM_023456
Cps1 / 6.2 / 25 / AV239350
Masp1 / 6.2 / 45 / NM_008555
Pitx2 / 6.2 / 95 / U80011
Apoa1 / 6.1 / 58 / NM_009692
Rhobtb3 / 6.1 / 155 / BG801497
C030034E14Rik / 6.1 / 96 / BE948505
--- / 6.1 / 79 / BM120498
A930009L07Rik / 6.1 / 72 / BB193580
Casd1 /// LOC100045658 / 6.0 / 76 / BF584721
4930563E22Rik / 6.0 / 65 / BB256689
BC026682 / 6.0 / 71 / NM_025590
Hist3h2a / 6.0 / 48 / AV297651
Nckap1l / 6.0 / 27 / BM238906
LOC100048338 /// Pdlim1 / 5.9 / 42 / AV013697
Tcf7l2 / 5.9 / 59 / AF107298
--- / 5.9 / 51 / BM938299
Kng1 / 5.9 / 34 / NM_023125
Stk36 / 5.8 / 42 / BB528554
Krt72 / 5.8 / 107 / AA791107
LOC667776 /// LOC675399 /// Nono / 5.8 / 126 / BM235749