Supplemental Data Table 1: Differentially expressed genes. Gene Symbol Probe1 Fold-change2 pregnancy specific beta-1-glycoprotein 9 PSG9 38180_f_at 11.12 pregnancy specific beta-1-glycoprotein 7 PSG7 35956_s_at 8.87 keratin 19 KRT19 40899_at 5.81 fatty acid binding protein 4 FABP4 38430_at 5.10 insulin-like growth factor binding protein 2 IGFBP2 1741_s_at 5.06 40422_at 3.81 fibrillin 2 FBN2 38012_at 4.89 dual specificity phosphatase 5 DUSP5 529_at 4.84 adlican adlican 36861_at 4.57 L1 cell adhesion molecule L1CAM 38551_at 4.40 zinc finger protein 36, C3H type-like 2 ZFP36L2 32588_s_at 3.89 secreted frizzled-related protein 1 SFRP1 32521_at 3.83 chemokine (C-C motif) ligand 2 CCL2 875_g_at 3.71 34375_at 3.67 cathepsin K CTSK 129_g_at 3.59 38466_at 3.26 nuclear receptor subfamily 4, group A, member 1 NR4A1 280_g_at 3.15 integrin, alpha 8 ITGA8 41005_at 3.15 neurofilament, light polypeptide 68kDa NEFL 40995_at 3.13 latrophilin 2 LPHN2 34174_s_at 2.95 33872_at 2.03 fibroblast growth factor 8 FGF8 1526_i_at 2.82 platelet-derived growth factor receptor, beta PDGFRB 1771_s_at 2.82 tenascin N TNN 36354_at 2.67 hypothetical protein FLJ12587 39322_at 2.59 ATP-binding cassette, sub-family B, member 1 ABCB1 1575_at 2.57 plasticity related gene 1 LPPR4 41714_at 2.50 dedicator of cytokinesis 10 DOCK10 31766_s_at 2.50 doublecortin and CaM kinase-like 1 DCAMKL1 38957_at 2.39 pregnancy specific beta-1-glycoprotein 3 PSG3 40857_f_at 2.37 itchy homolog E3 ubiquitin protein ligase ITCH 38349_at 2.33 paired mesoderm homeobox 1 PMX1 40126_at 2.30 mannosidase, alpha, class 1C, member 1 MAN1C1 40716_at 2.29 quinolinate phosphoribosyltransferase QPRT 37978_at 2.27 homeo box B3 HOXB3 33620_at 2.27 HRAS-like suppressor 3 HRASLS3 35704_at 2.27 cyclin-dependent kinase 5, regulatory subunit 1 CDK5R1 800_g_at 2.25 tumor necrosis factor superfamily, member 12 TNFSF12 39588_at 2.25 transglutaminase 2 TGM2 231_at 2.23 angiotensin I converting enzyme 1 ACE 37013_at 2.22 biglycan BGN 38126_at 2.22 wingless-type MMTV integration site family, member 1 WNT1 1853_at 2.18 RAR-related orphan receptor B RORB 32381_at 2.16 tubulin tyrosine ligase-like family, member 4 TTLL4 32671_at 2.16 CDP-diacylglycerol synthase 2 CDS2 41343_at 2.10 cholesteryl ester transfer protein, plasma CETP 40741_at 2.08 Rap guanine nucleotide exchange factor 1 RAPGEF1 36240_at 2.05 KIAA0870 protein 41735_at 2.05 41734_at 2.02 hypothetical protein MGC4293 33177_at 2.02 A kinase (PRKA) anchor protein (gravin) 12 AKAP12 37680_at 2.00 KIAA0746 protein 41585_at -2.00 phosphoserine phosphatase PSPH 37209_g_at -2.01 36736_f_at -2.16 KIAA0998 31367_at -2.02 galanin GAL1 35879_at -2.02 oxidised low density lipoprotein receptor 1 OLR1 37233_at -2.04 lung type-I cell membrane-associated glycoprotein T1A-2 41870_at -2.04 H factor (complement)-like 1 HFL1 32249_at -2.05 brain-derived neurotrophic factor BDNF 1088_at -2.07 40023_at -2.08 dickkopf homolog 1 DKK1 35977_at -2.07 pyrimidinergic receptor P2Y, G-protein coupled, 6 P2RY6 38222_at -2.07 mitogen-activated protein kinase 13 MAPK13 33245_at -2.09 MHC class I polypeptide-related sequence B MICB 40755_at -2.09 glutathione peroxidase 7 GPX7 36009_at -2.10 adenylate kinase 3 AK3 32331_at -2.10 DKFZP564O0823 protein 41402_at -2.12 insulin-like growth factor binding protein 5 IGFBP5 1678_g_at -2.12 41420_at -2.28 1601_s_at -2.66 transforming growth factor, beta-induced, 68kDa TGFBI 1385_at -2.14 v-src sarcoma viral oncogene homolog SRC 38904_at -2.14 epoxide hydrolase 1, microsomal EPHX1 38790_at -2.15 corneodesmosin CDSN 39991_at -2.16 kynureninase KYNU 40670_at -2.20 40671_g_at -5.37 telomeric repeat binding factor 1 TERF1 1329_s_at -2.25 tumor necrosis factor receptor superfamily, 8 TNFRSF8 34929_at -2.27 guanine nucleotide binding protein, beta polypeptide 2- GNB2L1 34610_at -2.29 like 1 tissue inhibitor of metalloproteinase 3 TIMP3 1035_g_at -2.33 1034_at -2.58 interferon-induced protein with tetratricopeptide repeats 2 IFIT2 909_g_at -2.35 RAD51 homolog C RAD51C 41480_at -2.39 cDNA DKFZp564H172 35881_at -2.39 a disintegrin and metalloproteinase domain 12 ADAM12 38770_at -2.41 transmembrane 4 superfamily member 1 TM4SF1 41531_at -2.43 892_at -2.66 glutathione S-transferase theta 2 GSTT2 1099_s_at -2.44 tubulin, alpha 1 TUBA1 36591_at -2.44 collagen, type XV, alpha 1 COL15A1 38427_at -2.45 hydroxysteroid (11-beta) dehydrogenase 1 HSD11B1 35702_at -2.47 interleukin 7 IL7 1159_at -2.51 solute carrier family 25, member 13 SLC25A13 38329_at -2.51 metallothionein 1X MT1X 39120_at -2.52 tetraspan 2 TSPAN-2 35497_at -2.53 necdin NDN 36073_at -2.53 2'-5'-oligoadenylate synthetase-like OASL 269_at -2.57 34491_at -8.59 decay accelerating factor for complement DAF 39695_at -2.61 interferon-induced protein with tetratricopeptide repeats 1 IFIT1 32814_at -2.67 915_at -4.18 tumor necrosis factor receptor superfamily, 25 TNFRSF25 1210_s_at -2.72 KIAA0367 33442_at -2.74 natriuretic peptide receptor C/guanylate cyclase C NPR3 34519_at -2.76 tripartite motif-containing 16 TRIM16 38881_i_at -2.76 interleukin 13 receptor, alpha 2 IL13RA2 1016_s_at -2.85 secreted and transmembrane 1 SECTM1 41045_at -2.88 adenosine deaminase, RNA-specific, B1 ADARB1 38748_at -2.95 interferon-stimulated protein, 15kDa ISG15 38432_at -3.02 ankyrin 3 ANK3 36965_at -3.05 calmegin CLGN 40710_at -3.07 adrenergic, beta, receptor kinase 2 ADRBK2 38498_at -3.11 zinc finger, MYND domain containing 10 ZMYND10 32993_s_at -3.14 glucokinase (hexokinase 4) regulator GCKR 37059_at -3.19 ninjurin 1 NINJ1 41475_at -3.20 bone morphogenetic protein 6 BMP6 1733_at -3.27 DNA-damage-inducible transcript 3 DDIT3 39420_at -3.29 RPE-spondin RPESP 39940_at -3.29 Fc fragment of IgG, low affinity IIb, receptor for FCGR2B 34664_at -3.37 coagulation factor II (thrombin) receptor-like 1 F2RL1 38247_at -3.37 interferon-induced protein with tetratricopeptide repeats 4 IFIT4 38584_at -3.54 keratin 7 KRT7 41294_at -3.55 neuronal pentraxin I NPTX1 37921_at -4.10 DNA-damage-inducible transcript 4 DDIT4 39827_at -4.17 bone marrow stromal cell antigen 2 BST2 39061_at -4.27 chitinase 3-like 1 CHI3L1 36197_at -4.68 baculoviral IAP repeat-containing 5 BIRC5 40533_at -4.80 BMP and activin membrane-bound inhibitor BAMBI 37678_at -5.11 KIAA1199 36070_at -5.56 myxovirus resistance 1 MX1 37014_at -5.86 G protein-coupled receptor 51 GPR51 33764_at -6.20 serine proteinase inhibitor, clade B, member 2 SERPINB2 37185_at -11.68 1Affymetrix probe identifier in the Human Genome U95A Array. 2Positive values indicate increased expression in tumor stroma relative to normal stroma while negative values indicate reduced expression in tumor stroma relative to normal stroma.