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1 Lee et al., Suppl. Fig. 1

2 Lee et al., Suppl. Fig. 2

3 Lee et al., Suppl. Fig. 3

4 Lee et al., Suppl. Fig. 4

5 Lee et al., Suppl. Fig. 5

6 Lee et al., Supplementary Table 1 Markers Percentage of p75+ cells [Mean ± SD] CD ± 2.5 CD ± 15 CD49d 75.3 ± 5 CD49b 67.4 ± 19 CXCR ± 12 CD73 3 ± 0.6 O4 1.9 ± 1 CD ± N/A CD ± N/A CD106 0 ± 0

7 Lee et al., Supplementary Table 2 p75+/hnk1+ p75-/hnk1- Differentiatial Expression FC >= 2 pval Gene Signal Detection Signal Detection Signal Fold Change Statistic _at POU4F1 271 P 7 A I 0.005% _s_at SCN3A 131 P 3 A I 0.003% _at TFAP2B 3765 P 151 P I 0.002% _at SOX P 118 A I 0.002% _s_at CDH1 74 P 6 A I 0.035% _s_at ERBB P 168 P I 0.002% _at C5orf P 116 P I 0.015% _at GDF8 244 P 22 P I 0.002% _at MEF2C 266 P 7 A I 0.002% _x_at PAX3 442 P 44 A I 0.006% _s_at CHGA 615 P 92 A I 0.005% _s_at FAP 361 P 45 A I 0.004% _s_at DCN 856 P 131 P I 0.010% _s_at HAPLN1 492 P 47 A I 0.002% _at ITGA4 95 P 8 A I 0.003% _at NEF P 638 P I 0.002% _at NGFR 300 P 47 A I 0.011% _at HOXA2 479 P 50 A I 0.077% _at NPR3 284 P 59 A I 0.007% _at TGFBI 2175 P 427 P I 0.002% _at S100A P 195 A I 0.002% _at CRYZ 470 P 127 A I 0.002% _s_at EDNRA 1755 P 335 P I 0.002% _at CRABP P 2340 P I 0.002% _at SNAI P 313 P I 0.002% _s_at XIST 386 P 41 A I 0.010% _s_at EDNRA 574 P 92 A I 0.002% _at GAP P 251 P I 0.002% _at TFAP2A 2328 P 439 P I 0.002% _s_at TFAP2A 867 P 148 P I 0.002% _at PCDH8 440 P 97 P I 0.004% _at PHOX2B 657 P 148 A I 0.019% _s_at DLC1 727 P 180 A I 0.010% _at NRP2 261 P 57 A I 0.021% _x_at DCN 1707 P 426 P I 0.002% _s_at SNAP P 85 P I 0.062% _s_at NNAT 1595 P 212 A I 0.002% _s_at KIAA P 31 A I 0.024% _at ITGA4 375 P 121 A I 0.003% _at P 486 P I 0.002% _x_at DCN 1378 P 315 M I 0.003% _x_at XIST 450 P 94 A I 0.017% _at RBP P 570 P I 0.002%

8 Lee et al., Supplementary Table _s_at EDNRA 333 P 101 M I 0.003% _s_at KIAA P 448 P I 0.002% _at HOXB P 474 A I 0.024% _at CDH P 70 P I 0.024% _s_at NR2F P 715 P I 0.003% _at SERPINB9 681 P 203 A I 0.002% _s_at SPP1 298 P 90 A I 0.013% _at CRABP P 1229 P I 0.002% _s_at CDH6 96 P 32 A I 0.019% _s_at LAMB1 946 P 275 P I 0.002% _x_at TFAP2B 402 P 61 A I 0.024% _s_at GAP P 292 M I 0.004% 47550_at LZTS1 284 P 110 A I 0.007% _s_at COL1A P 3025 P I 0.002% _at BCHE 1497 P 373 P I 0.002% _s_at IFI P 68 P I 0.055% _at NFASC 363 P 141 P I 0.024% _at S100A P 214 A I 0.009% _at LGALS P 355 P I 0.002% _at LAMB1 829 P 257 P I 0.002% _s_at LUM 1833 P 609 P I 0.002% _s_at STMN P 1650 P I 0.002% _s_at SEMA3C 651 P 169 P I 0.002% _at BMP5 242 P 66 A I 0.011% _s_at RUNX1T1 280 P 117 P I 0.002% _s_at SORBS1 251 P 70 P I 0.004% _s_at KBTBD10 99 P 18 A I 0.005% _s_at IGFBP7 223 P 48 A I 0.011% _s_at IGFBP5 912 P 277 P I 0.002% _at DPYD 133 P 34 M I 0.011% _at CYP26A P 302 P I 0.019% _x_at NR2F P 1657 P I 0.008% _at CHN2 506 P 251 P I 0.005% _at NHLH P 413 P I 0.002% _s_at DNAJC P 608 P I 0.002% _at SCG3 108 P 30 A I 0.055% _at LIN P 1230 P I 0.002% _s_at COL1A P 2668 P I 0.002% _s_at FST 1260 P 435 P I 0.009% _at SLN 457 P 168 A I 0.005% _s_at ROR1 763 P 291 P I 0.003% _at ST P 60 P I 0.003% _s_at GNRH1 135 P 49 A I 0.013% _at IGFBP P 1224 P I 0.002% _at RHOB 3296 P 1515 P I 0.002%

9 Lee et al., Supplementary Table _at SLIT P 519 P I 0.002% _at P2RY5 886 P 292 P I 0.017% _at DACT1 639 P 213 P I 0.002% _at NEFL 1187 P 451 P I 0.002% _at NEFL 1964 P 820 P I 0.005% _at ENC P 1978 P I 0.002% _at ALCAM 988 P 368 P I 0.002% _s_at GYPC 1014 P 639 P I 0.007% _at STMN P 2376 P I 0.002% _s_at BMP5 489 P 180 P I 0.005% _at SCRG1 771 P 268 P I 0.006% _s_at ITGA4 116 P 37 A I 0.024% _s_at MITF 461 P 114 A I 0.013% _at MOXD1 892 P 386 P I 0.004% _s_at PMP P 261 P I 0.002% _at CNR1 257 P 95 P I 0.013% _at P 81 A I 0.097% _x_at BGN /// TS 625 P 229 P I 0.006% _at SST 1143 P 444 P I 0.010% _s_at COL3A P 484 P I 0.003% _at C3orf P 101 A I 0.002% _s_at SH3BGRL P 649 P I 0.002% _s_at LDLRAP1 244 P 89 A I 0.021% _at LITAF 1942 P 851 P I 0.002% _s_at ARL6IP P 1289 P I 0.002% _at ANXA1 150 P 90 P I 0.005% _x_at AP1S P 907 P I 0.019% _s_at ZFHX1B 271 P 144 P I 0.007% _s_at DCX 3811 P 2205 P I 0.002% _at TNNC2 330 P 138 A I 0.005% _s_at CDH6 638 P 237 P I 0.006% _at FST 338 P 121 P I 0.002% _s_at ST7 175 P 107 A I 0.017% _x_at IFI P 120 A I 0.049% _at NR2F P 2371 P I 0.002% _s_at LRRN3 441 P 196 A I 0.044% _s_at LRRN3 858 P 269 P I 0.002% _at TNRC4 393 P 180 P I 0.055% _s_at NR2F2 505 P 218 P I 0.077% _at COMMD9 398 P 198 A I 0.062% _s_at STRA6 596 P 222 A I 0.015% _x_at GRN 1889 P 833 P I 0.010% _x_at ARHGDIA 244 P 148 M I 0.015% _s_at SHC1 438 P 213 P I 0.055% _at PODXL 896 P 416 P I 0.035%

10 Lee et al., Supplementary Table _x_at COL3A P 556 P I 0.013% _s_at NRIP P 1226 P I 0.003% _s_at COBLL1 329 P 99 P I 0.062% _at QPRT 1417 P 720 P I 0.003% _s_at INA 1321 P 604 P I 0.021% _at L1CAM 408 P 190 P I 0.002% _s_at MSX P 616 P I 0.006% _s_at PITX2 69 P 37 A I 0.013% _s_at PCBP P 1511 P I 0.062% _x_at HMGA1 514 P 253 P I 0.009% _s_at POSTN 564 P 232 P I 0.049% _at C10orf P 382 P I 0.013% _at C10orf P 287 P I 0.015% _s_at COL14A1 76 P 40 A I 0.027% _at PHLDA1 363 P 163 P I 0.005% _at NAGK 680 P 383 A I 0.049% _s_at KCNK5 539 P 224 P I 0.024% _at L1TD P 822 P I 0.004% 58308_at TRIM P 99 A I 0.050% _s_at GSN 1118 P 482 P I 0.006% _s_at ARL6IP P 3003 P I 0.019% _s_at RRBP1 538 P 215 P I 0.027% _x_at BGN 515 P 206 P I 0.035% _at ALCAM 119 P 50 A I 0.062% _at PDGFRA 801 P 336 P I 0.002% _s_at ATP1A P 464 P I 0.044% _s_at CEBPD 186 P 67 A I 0.077% _x_at AKR1C1 824 P 438 P I 0.002% _at EEF1A2 744 P 254 P I 0.024% _at TAGLN P 1002 P I 0.004% _at MDFI 673 P 516 P I 0.062% _x_at S100A P 398 P I 0.031% _x_at NR2F2 614 P 349 P I 0.006% _at NR2F P 1314 P I 0.002% _s_at NRXN1 258 P 116 A I 0.002% _s_at CDH6 758 P 326 P I 0.002% _at FAM89B 857 P 358 A I 0.055% _at GPR P 47 A I 0.002% _at NHLH1 921 P 476 P I 0.002% _x_at GRN 1006 P 729 P I 0.003% _s_at C9orf P 111 P I 0.006% _at RASL P 199 A I 0.021% _s_at C16orf P 159 P I 0.005% _at KCNN2 106 P 54 A I 0.077% _at SLC17A6 335 P 200 P I 0.006%

11 Lee et al., Supplementary Table _s_at STMN P 493 P I 0.007% _at ELK3 427 P 186 P I 0.003% _x_at NEFL 242 P 152 A I 0.031% _s_at PALLD 2632 P 4605 P D 0.002% _s_at SMS 1554 P 3279 P D 0.002% _at ARL4C 2003 P 3864 P D 0.002% _at HSPA1B 541 P 1160 P D 0.004% _s_at SYNE P 2717 P D 0.002% _at TCEB1 224 P 443 P D 0.003% _s_at CAPN6 627 P 1249 P D 0.003% _at CAPN6 291 P 487 P D 0.077% _s_at PDLIM5 303 P 775 P D 0.027% _at DDB P 2182 P D 0.005% _at NELL P 4090 P D 0.002% _at EPHA2 440 P 926 P D 0.021% _at BCL2 230 P 372 P D 0.015% _s_at SORBS2 269 P 630 P D 0.049% _s_at PROM1 736 P 1361 P D 0.002% _x_at TRIM P 3391 P D 0.004% _at NAV3 355 A 726 P D 0.005% _at MPPED2 378 P 643 P D 0.010% _s_at FAM107A 256 P 573 P D 0.005% _s_at CD P 1716 P D 0.002% _x_at HLA-B 2314 P 5655 P D 0.002% _at FOS 1797 P 3823 P D 0.003% _s_at DLK P P D 0.002% _s_at IGFBP3 340 P 688 P D 0.002% _s_at SAT 1935 P 3531 P D 0.002% _s_at DTNA 82 M 183 P D 0.087% _x_at SLC1A4 221 P 435 P D 0.087% _s_at COL4A P 3614 P D 0.002% _s_at TRIM P 358 P D 0.006% _s_at SPON1 87 P 263 P D 0.039% _at P 249 P D 0.031% _s_at MPPED2 207 P 343 P D 0.013% _s_at GATM 143 P 391 P D 0.062% _at C9orf M 302 P D 0.007% _s_at PSTPIP2 130 P 240 P D 0.017% _at DSP 393 P 993 P D 0.008% _s_at PALLD 913 P 2220 P D 0.004% _at ARL4C 1683 P 3507 P D 0.002% _s_at ARL4C 800 P 2110 P D 0.011% _at PRSS P 1304 P D 0.002% _at SPRY P 2658 P D 0.002% _at WASF P 3053 P D 0.019%

12 Lee et al., Supplementary Table _at CROT 344 P 851 P D 0.002% _at C1orf P 2809 P D 0.010% _at ZIC P P D 0.003% _x_at HLA-C 2604 P 4340 P D 0.002% _s_at DUSP6 962 P 2031 P D 0.004% _at TNFRSF P 2869 P D 0.004% _at BMP7 662 P 1067 P D 0.005% _s_at SLIT2 739 P 1529 P D 0.002% _s_at LHX2 682 P 1835 P D 0.002% _at QKI 592 P 1707 P D 0.002% _x_at BTG P 3156 P D 0.002% _x_at TRIM P 2435 P D 0.002% _at COL4A P 5357 P D 0.002% _s_at TKTL1 140 A 302 P D 0.005% _at KIAA A 167 P D 0.044% _s_at LZTFL1 427 P 798 P D 0.002% _s_at FAM29A 93 P 125 P D 0.021% _at NOTCH1 625 P 1286 P D 0.004% _s_at CNTNAP2 736 P 1379 P D 0.017% _at FJX1 476 P 920 P D 0.035% _at WIG1 496 P 966 P D 0.002% _at AGPAT4 335 P 816 P D 0.006% _s_at CEP P 175 P D 0.021% _at EMX P 4836 P D 0.004% _at HTRA1 414 P 928 P D 0.005% _s_at EFEMP1 420 P 1217 P D 0.002% _at GAS6 213 A 387 P D 0.049% _s_at DMD 453 P 1033 P D 0.002% _s_at FUT8 360 P 835 P D 0.017% _at HSPA4L 146 A 344 P D 0.003% _at LHX P 8390 P D 0.002% _s_at HDC 336 A 768 P D 0.006% _at CHRDL1 331 P 676 P D 0.019% _s_at TP53AP1 410 P 821 P D 0.002% _s_at ZNF P 533 P D 0.039% _s_at MTUS1 232 P 574 P D 0.003% _at SPG P 694 P D 0.002% _x_at HLA-C 1989 P 3698 P D 0.006% _at SOX P 2922 P D 0.002% _at MACF1 45 P 107 P D 0.044% _s_at C14orf P 528 P D 0.004% _s_at GALNT P 1148 P D 0.003% _s_at CNTNAP2 660 P 1025 P D 0.007% _at TTYH P 2640 P D 0.002% _at FLJ P 346 P D 0.031%

13 Lee et al., Supplementary Table _at FAM70A 222 P 558 P D 0.002% _at NACA /// N 203 P 363 P D 0.010% _at GATM 106 P 125 P D 0.005% _x_at CD A 1103 P D 0.044% _s_at COCH 365 P 781 P D 0.002% _at ZNF P 262 P D 0.015% _s_at FBN2 153 P 384 P D 0.003% _s_at C11orf17 // 518 P 1403 P D 0.002% _at VDP 61 P 189 P D 0.009% 36711_at MAFF 132 P 359 P D 0.004% _s_at EFEMP1 55 A 154 P D 0.002% _at PLK2 205 P 460 P D 0.003% _s_at ENPP4 73 A 246 P D 0.024% _s_at COL9A3 178 A 606 P D 0.010% _x_at PLAGL1 332 P 837 P D 0.005% _x_at SSX4 /// SS 67 A 304 P D 0.019% _at P 1471 P D 0.002% _s_at CNTNAP2 449 P 1142 P D 0.015% _s_at KIAA A 483 P D 0.044% _s_at WNT5B 427 P 1043 P D 0.002% _s_at ETV5 371 P 1112 P D 0.002% _s_at CREB5 166 A 303 P D 0.007% _at FOXG1B 3051 P P D 0.004% _s_at HTR2C 43 P 111 P D 0.006% _at CMKOR1 432 P 1195 P D 0.002% _at A 153 P D 0.015% _at LOC P 189 P D 0.006% _s_at PMAIP1 221 P 751 P D 0.002% _s_at PLAGL1 246 P 842 P D 0.003% _s_at DUSP6 439 M 1362 P D 0.027% _at DOCK3 59 A 162 P D 0.031% _x_at GDF A 390 P D 0.010% _at CD9 154 P 576 P D 0.004% _s_at FABP P 7288 P D 0.002% _at FABP P P D 0.002% _s_at FOXG1B // 365 P 1834 P D 0.004% _at CA2 451 P 1442 P D 0.002% _x_at PLAGL1 412 P 1169 P D 0.002% _s_at PLEKHB1 304 P 907 P D 0.003% _s_at NOS2A 139 P 428 P D 0.006% _s_at ZNF P 1238 P D 0.005% _at EFNA1 105 A 434 P D 0.006% _at WIF1 83 P 266 P D 0.009% _at LGI1 381 P 1485 P D 0.002% _at SIX3 603 P 1465 P D 0.011%

14 Lee et al., Supplementary Table _s_at AMY1A /// A 19 A 98 P D 0.062% _at PAK3 149 P 520 P D 0.002% _at RMST 483 P 1425 P D 0.002% _at HTR2C 153 P 473 P D 0.002% _at LGR5 192 P 680 P D 0.002% _at MFAP3L 41 A 188 P D 0.002% _s_at PMAIP1 76 P 308 P D 0.035% _s_at DSCR6 76 P 483 P D 0.005% _at SPRY1 492 P 1916 P D 0.002% _at NPY2R 52 P 200 P D 0.005% _at GRAMD1C 36 A 122 P D 0.021% _s_at FAM107A 49 A 448 P D 0.004% _s_at C2orf P 2590 P D 0.002% _at FGF17 44 A 430 P D 0.055% _at F3 30 A 283 P D 0.011% _s_at ZNF236 7 A 107 P D 0.005% _s_at FGF8 5 A 124 P D 0.039% _at FLJ A 144 P D 0.019%

15 Lee et al., Supplementary Table 3 Name COMPANY Name COMPANY AFP Sigma Lyve-1 Chemicon AP2b DSHB MBP Chemicon Alpha2 integrin (CD49b)-PE BD Musashi1 R&D Alpha4 integrin (CD49d)-PE BD NCAM (eric-1) SCBT ALP (Bone-specific) DSHB NCAM (5.1H11) DSHB Brn3a Chemicon NG2 Chemicon Calponin Sigma Nestin R&D CD105-PE AbDSerotec O4 Chemicon CD106 (V-CAM) APC BD Oct-4 SCBT CD133-PE Miltenyi p75 Advanced targeting system CD146-PE BD Pax6 DSHB CD29-PEcy5 BD PCNA Sigma CD44-PE BD Peripherin Abcam Chemicon CD45-PE BD S100 DAKO CD73-PE BD SM22a Vision Bio Collagen II Chondrex SMA Sigma CXCR4 BD Sox10 Sigma DBH Pel-Freez Sox2 SCBT GABA Sigma SSEA-4 DSHB GFAP MP biomedical Stro1 SCBT Human nuclear antigen Chemicon TH Pel-Freez Hnk1 Sigma Tuj1 Covance Islet1 DSHB Vimentin-cy3 Sigma Ki-67 Sigma

16 Lee et al., Supplementary Table 4 Name Orientation Ann. Tem Size Sequence Aggrecan Sense CACTGTTACCGCCACTTCCC ACCAGCGGAAGTCCCCTTCG ALP Sense TGGAGCTTCAGAAGCTCAACACCA ATCTCGTTGTCTGAGTACCAGTCC Ap2 Sense TCCCTGTCCAAGTCCAACAGCAAT AAATTCGGTTTCGCACACGTACCC BSP Sense AATGAAAACGAAGAAAGCGAAG ATCATAGCCATCGTAGCCTTGT ChgA Sense AACCAGAGCAGCCAGGCCGAG TGGCTGGAGGGTGGGTGTTGG Collagen2 Sense ATGATTCGCCTCGGGGCTCC CATTACTGGGAACTGGGCGC ENDRA Sense TATCAATGTATTTAAGCTGCTGG GGAATGGCCAGGATAAAGG ErbB3 Sense GGTGCTGGGCTTGCTTTT CGTGGCTGGAGTTGGTGTTA GAPDH Sense CCCCTTCATTGACCTCAACTACA TTGCTGATGATCTTGAGGCTGT HoxA2 Sense TACCCCTGGATGAAGGAGAAG AGTCAAATCCAGCAGCGCTG Msx-1 Sense CCTTCCCTTTAACCCTCACAC CCGATTTCTCTGCGCTTTTCT Oct3/4 Sense ATTTGCCAAGCTCCTGAAGCAG TTGATCGCTTGCCCTTCTGG Pax3 Sense GCACTGTACACCAAAGCACG TAGGTGGGTGGACAGTAGGA PPARγ Sense CTCCTATTGACCCAGAAAGC GTAGAGCTGAGTCTTCTCAG SCN3a Sense GTAGTGGTGCATTGGCCTTT GCACCGAGTTCTGAGTAGCC Slug Sense AGCGAACTGGACACACATAC TCTAGACTGGGCATCGCAG SmMActin α sense CTGTTTTCCCATCCATTGTGG antisense GCAACACGAAGCTCATTGTAG SmMActin γ sense TGGCACCACTCCTTCTACAATG antisense TCATAGATGGGGACATTGTGG Snail Sense CTCCTCTACTTCAGCCTCTT CTTCATCAAAGTCCTGTGGG Sox10 Sense ATACGACACTGTCCCGGCCCTAAA TTCTCCTCTGTCCAGCCTGTTCTC

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