Gene SymbolGene Name Fold Difference 1 q-value (%) 2 NL BM? 3 NR2F1nuclear receptor subfamily 2, group F, member 111.95.28No SLC2A10solute carrier family.

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Presentation transcript:

Gene SymbolGene Name Fold Difference 1 q-value (%) 2 NL BM? 3 NR2F1nuclear receptor subfamily 2, group F, member No SLC2A10solute carrier family 2, member No EGFL7EGF-like-domain, multiple No PITX2paired-like homeodomain transcription factor No GPR161G protein-coupled receptor No IGFBP4insulin-like growth factor binding protein No PRSS16serine protease No PDGFRLplatelet-derived growth factor receptor-like No PTPRN2protein tyrosine phosphatase, receptor type, N polypeptide No PCpyruvate carboxylase No THBS2thrombospondin No TFPItissue factor pathway inhibitor No CLEC3BC-type lectin domain family 3, member B No SYNPOSynaptopodin No PCK1phosphoenolpyruvate carboxykinase No HSPB1heat shock 27kDa protein No KCNAB1potassium voltage-gated channel, shaker-related subfamily, beta member No FLT1fms-related tyrosine kinase No S100A3S100 calcium binding protein A No TWIST1twist homolog No DUSP9dual specificity phosphatase No GKN1gastrokine No AKR1C2aldo-keto reductase family 1, member C No PDE5Aphosphodiesterase 5A, cGMP-specific No PIRpirin (iron-binding nuclear protein) No CRISP3cysteine-rich secretory protein Yes S100PS100 calcium binding protein P Yes CEACAM6carcinoembryonic antigen-related cell adhesion molecule Yes DEFA4defensin, alpha 4, corticostatin Yes KCNJ15potassium inwardly-rectifying channel, subfamily J, member Yes ENGEndoglin Yes CAMPcathelicidin antimicrobial peptide Yes MMP9matrix metalloproteinase Yes MGAMmaltase-glucoamylase Yes IL8RAinterleukin 8 receptor, alpha Yes COL18A1collagen, type XVIII, alpha Yes ORM1orosomucoid Yes FGFR3fibroblast growth factor receptor Yes SCARF1scavenger receptor class F, member Yes LCN2lipocalin Yes IL1R1interleukin 1 receptor, type I Yes APOEapolipoprotein E Yes PTGESprostaglandin E synthase Yes GJA1Connexin Yes TNFRSF10Ctumor necrosis factor receptor superfamily, member 10c Yes SEPP1selenoprotein P, plasma, Yes CEACAM8carcinoembryonic antigen-related cell adhesion molecule Yes FCGR3BFc fragment of IgG, low affinity IIIb, receptor Yes GNG11guanine nucleotide binding protein, gamma Yes TCN1transcobalamin I Yes CLCCharcot-Leyden crystal protein Yes G0S2putative lymphocyte G0/G1 switch gene Yes GPR109BG protein-coupled receptor 109B Yes UBE2Mubiquitin-conjugating enzyme E2M Yes LTFLactotransferrin Yes NPM3nucleophosmin/nucleoplasmin, Yes SIPA1signal-induced proliferation-associated gene Yes FGF13fibroblast growth factor Yes TSPAN2tetraspan Yes PRV1polycythemia rubra vera Yes ID1inhibitor of DNA binding 1, dominant negative helix-loop-helix protein Yes TFF3trefoil factor Yes APEX2APEX nuclease Yes LEPRleptin receptor Yes SLPIsecretory leukocyte protease inhibitor Yes CA4carbonic anhydrase IV Yes TACSTD1tumor-associated calcium signal transducer Yes Supplemental Table Genes over expressed in EpCAM selected cells from bone marrows of patients with stage II/III breast cancer prior to any treatment-analysis of microarray data

Footnote for Supplemental Table 1 1: Fold difference: Bone marrow from cancer patients versus normal bone marrow 2: q-value %: measure of false discovery rate 3: Nl BM?: Expression detected in gene array samples from normal bone marrow

Supplemental Table 2. Expression of 12 Genes from the 67 Gene Signature in control bone marrow spiked with serial dilutions of Her2/neu positive SKBR3, ER-positive ZR75, or triple negative MDA- MB231 breast tumor cell lines. Cell dilutions (tumors cells per total nucleated bone marrow cells) are displayed on the left of the table. Fold difference in gene expression relative to non-spiked bone marrow is shown for each gene at each dilution for the three cell types. For genes without detectable expression in non-malignant bone marrow, fold differences are calculated by the ddCT method using an arbitrary CT value of 40 for the non-malignant bone marrow sample. (UD=undetected)