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Table 2 Differentially expressed Fibromatosis and Desmoplastic response genes in the MAM-1 Transcriptome

From: A stable explant culture of HER2/neu invasive carcinoma supported by alpha-Smooth Muscle Actin expressing stromal cells to evaluate therapeutic agents

Agilent Accession Genbank Accession Ratio of MAM-1 vs. Bam1a p-value (n = 3) Gene Description and Symbol Reference
A_51_P162272 NM_009524 5.95 2.58E-03 Mus musculus wingless-related MMTV integration site 5A (Wnt5a), mRNA [NM_009524] West
A_51_P390804 NM_016873 125.00 8.89E-06 Mus musculus WNT1 inducible signaling pathway protein 2 (Wisp2), mRNA [NM_016873] West
A_51_P220343 NM_018865 16.66 4.06E-06 Mus musculus WNT1 inducible signaling pathway protein 1 (Wisp1), mRNA [NM_018865] West
A_52_P658611 NM_007742 19.92 4.09E-03 Mus musculus procollagen, type I, alpha 1 (Col1a1), mRNA [NM_007742] West, Iacobuzio-Donahue
A_52_P525107 NM_007742 187.97 1.12E-05 Mus musculus procollagen, type I, alpha 1 (Col1a1), mRNA [NM_007742] West, Iacobuzio-Donahue
A_51_P377094 NM_007742 37.17 9.02E-08 Mus musculus procollagen, type I, alpha 1 (Col1a1), mRNA [NM_007742] West, Iacobuzio-Donahue
A_51_P414637 NM_015734 168.63 7.15E-06 Mus musculus procollagen, type V, alpha 1 (Col5a1), mRNA [NM_015734] West
A_52_P684242 NM_009930 4.93 7.45E-05 Mus musculus procollagen, type III, alpha 1 (Col3a1), mRNA [NM_009930] West
A_51_P515605 NM_009930 94.34 1.67E-09 Mus musculus procollagen, type III, alpha 1 (Col3a1), mRNA [NM_009930] West
A_51_P474496 NM_009933 12.21 6.30E-08 Mus musculus procollagen, type VI, alpha 1 (Col6a1), mRNA [NM_009933] West
A_51_P502132 NM_011985 7.69 1.96E-07 Mus musculus matrix metalloproteinase 23 (Mmp23), mRNA [NM_011985] West
A_51_P269166 NM_021412 13.33 1.11E-02 Mus musculus matrix metalloproteinase 19 (Mmp19), mRNA [NM_021412] West
A_51_P293087 NM_008606 4.76 7.12E-06 Mus musculus matrix metalloproteinase 11 (Mmp11), mRNA [NM_008606] West
A_51_P404077 NM_020510 3.45 3.09E-06 Mus musculus frizzled homolog 2 (Drosophila) (Fzd2), mRNA [NM_020510] West
A_52_P597634 NM_021457 4.55 5.25E-07 Mus musculus frizzled homolog 1 (Drosophila) (Fzd1), mRNA [NM_021457] West
A_52_P224801 NM_007993 130.03 1.47E-03 Mus musculus fibrillin 1 (Fbn1), mRNA [NM_007993] West
A_51_P467224 NM_007993 240.38 8.77E-05 Mus musculus fibrillin 1 (Fbn1), mRNA [NM_007993] West
A_52_P220176 NM_015814 20.88 3.70E-02 Mus musculus dickkopf homolog 3 (Xenopus laevis) (Dkk3), mRNA [NM_015814] West
A_52_P489295 NM_009621 4.22 2.72E-05 Mus musculus a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 1 (Adamts1), mRNA [NM_009621] West
A_52_P213932 NM_009621 3.10 1.94E-05 Mus musculus a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 1 (Adamts1), mRNA [NM_009621] West
A_52_P280044 NM_009616 16.21 1.63E-05 Mus musculus a disintegrin and metalloproteinase domain 19 (meltrin beta) (Adam19), mRNA [NM_009616] West
A_51_P267447 NM_009616 10.35 8.95E-04 Mus musculus a disintegrin and metalloproteinase domain 19 (meltrin beta) (Adam19), mRNA [NM_009616] West
A_52_P290457 NM_007400 33.11 4.05E-03 Mus musculus a disintegrin and metalloproteinase domain 12 (meltrin alpha) (Adam12), mRNA [NM_007400] West, Peduto
A_51_P510882 NM_007400 9.35 1.38E-03 Mus musculus a disintegrin and metalloproteinase domain 12 (meltrin alpha) (Adam12), mRNA [NM_007400] West, Peduto
A_51_P350817 NM_009922 38.46 1.29E-04 Mus musculus calponin 1 (Cnn1), mRNA [NM_009922] West
A_52_P599578 NM_145575 1.24 1.03E-02 Mus musculus caldesmon 1 (Cald1), mRNA [NM_145575] West
A_51_P357573 NM_145575 1.25 3.07E-02 Mus musculus caldesmon 1 (Cald1), mRNA [NM_145575] West
A_51_P157042 NM_010217 14.33 1.71E-04 Mus musculus connective tissue growth factor (Ctgf), mRNA [NM_010217] West
A_51_P124748 NM_009368 0.45 7.08E-04 Mus musculus transforming growth factor, beta 3 (Tgfb3), mRNA [NM_009368] West
A_51_P212754 NM_009369 11.76 1.54E-03 Mus musculus transforming growth factor, beta induced (Tgfbi), mRNA [NM_009369] Iacobuzio-Donahue
A_51_P472292 NM_008048 65.79 6.80E-09 Mus musculus insulin-like growth factor binding protein 7 (Igfbp7), mRNA [NM_008048] Iacobuzio-Donahue
A_51_P110301 NM_009778 4.59 3.95E-05 Mus musculus complement component 3 (C3), mRNA [NM_009778] Iacobuzio-Donahue
A_51_P218774 NM_026418 2.74 9.21E-04 Mus musculus regulator of G-protein signalling 10 (Rgs10), mRNA [NM_026418] Iacobuzio-Donahue
A_51_P224843 NM_021278 2.84 2.24E-03 Mus musculus thymosin, beta 4, X chromosome (Tmsb4x), mRNA [NM_021278] Iacobuzio-Donahue
A_51_P111210 NM_133786 1.10 1.45E-01 Mus musculus SMC4 structural maintenance of chromosomes 4-like 1 (yeast) (Smc4l1), mRNA [NM_133786] Iacobuzio-Donahue
A_52_P101852 NM_009242 27.25 1.90E-07 Mus musculus secreted acidic cysteine rich glycoprotein (Sparc), mRNA [NM_009242] Iacobuzio-Donahue
A_51_P431087 NM_009242 67.11 1.96E-08 Mus musculus secreted acidic cysteine rich glycoprotein (Sparc), mRNA [NM_009242] Iacobuzio-Donahue
A_51_P452876 NM_021515 7.46 3.48E-06 Mus musculus adenylate kinase 1 (Ak1), mRNA [NM_021515] Iacobuzio-Donahue
A_51_P149562 NM_009686 6.13 1.52E-04 Mus musculus amyloid beta (A4) precursor protein-binding, family B, member 2 (Apbb2), mRNA [NM_009686] Iacobuzio-Donahue
A_52_P49250 NM_010152 0.86 4.40E-03 Mus musculus v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian) (Erbb2), transcript variant 2, mRNA [NM_010152] Iacobuzio-Donahue
A_51_P216179 NM_010152 0.54 3.14E-03 Mus musculus v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian) (Erbb2), transcript variant 2, mRNA [NM_010152] Iacobuzio-Donahue
A_51_P341736 NM_008610 2.74 1.93E-04 Mus musculus matrix metalloproteinase 2 (Mmp2), mRNA [NM_008610] Wang, Singer
A_51_P258529 NM_008885 15.77 3.73E-05 Mus musculus peripheral myelin protein (Pmp22), mRNA [NM_008885] Kunz-Schughart
A_51_P213359 NM_008216 23.70 1.46E-07 Mus musculus hyaluronan synthase 2 (Has2), mRNA [NM_008216] Li
A_52_P582374 NM_178825 0.04 5.59E-03 Mus musculus epithelial stromal interaction 1 (breast) (Epsti1), transcript variant b, mRNA [NM_178825] Gudjonsson
A_51_P376050 NM_029495 0.03 2.78E-03 Mus musculus epithelial stromal interaction 1 (breast) (Epsti1), transcript variant a, mRNA [NM_029495] Gudjonsson
A_51_P127681 NM_013885 3.62 1.28E-07 Mus musculus chloride intracellular channel 4 (mitochondrial) (Clic4), mRNA [NM_013885] Suh, Ronnov-Jessen
A_51_P392687 NM_011701 25.000 5.47E-04 Mus musculus vimentin (Vim), mRNA [NM_011701]  
A_52_P56471 NM_007912 4.35 8.57E-06 Mus musculus epidermal growth factor receptor (Egfr), transcript variant 2, mRNA [NM_007912]  
A_51_P392242 NM_007912 4.17 1.10E-05 Mus musculus epidermal growth factor receptor (Egfr), transcript variant 2, mRNA [NM_007912]  
A_52_P674338 NM_207655 7.14 1.90E-03 Mus musculus epidermal growth factor receptor (Egfr), transcript variant 1, mRNA [NM_207655]  
A_52_P106259 NM_207655 11.56 2.06E-05 Mus musculus epidermal growth factor receptor (Egfr), transcript variant 1, mRNA [NM_207655]  
A_51_P414813 NM_010153 0.61 3.13E-03 Mus musculus v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian) (Erbb3), mRNA [NM_010153]  
A_51_P342050 NM_010153 0.58 3.28E-02 Mus musculus v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian) (Erbb3), mRNA [NM_010153]  
A_52_P420504 NM_007392 17.18 7.97E-05 Mus musculus actin, alpha 2, smooth muscle, aorta (Acta2), mRNA [NM_007392]  
A_52_P210078 NM_007392 101.94 6.74E-05 Mus musculus actin, alpha 2, smooth muscle, aorta (Acta2), mRNA [NM_007392]  
A_51_P103396 NM_016879 0.260 2.69E-04 Mus musculus keratin complex 2, basic, gene 18 (Krt2-18), mRNA [NM_016879]  
A_51_P356642 NM_008471 5.550 7.53E-06 Mus musculus keratin complex 1, acidic, gene 19 (Krt1-19), mRNA [NM_008471]  
A_51_P482128 NM_008469 2.760 3.01E-04 Mus musculus keratin complex 1, acidic, gene 15 (Krt1-15), mRNA [NM_008469]  
A_51_P118225 NM_028078 0.028 7.55E-04 Mus musculus junction adhesion molecule 4 (Jam4), mRNA [NM_028078]  
A_51_P358354 NM_023277 30.030 2.21E-06 Mus musculus junction adhesion molecule 3 (Jam3), mRNA [NM_023277]  
A_52_P374846 NM_023844 19.120 9.97E-04 Mus musculus junction adhesion molecule 2 (Jam2), mRNA [NM_023844]  
A_51_P418375 NM_023844 10.256 8.90E-04 Mus musculus junction adhesion molecule 2 (Jam2), mRNA [NM_023844]  
A_52_P93974 NM_021359 0.316 1.46E-02 Mus musculus integrin beta 6 (Itgb6), mRNA [NM_021359]  
A_52_P459521 NM_001005607 0.261 3.06E-05 Mus musculus integrin beta 4 (Itgb4), transcript variant 3, mRNA [NM_001005607]  
A_51_P382970 NM_133721 25.125 3.19E-02 Mus musculus integrin alpha 9 (Itga9), mRNA [NM_133721]  
A_52_P413034 NM_008398 2.985 2.73E-02 Mus musculus integrin alpha 7 (Itga7), mRNA [NM_008398]  
A_51_P181671 NM_008398 3.401 4.71E-03 Mus musculus integrin alpha 7 (Itga7), mRNA [NM_008398]  
A_52_P364140 NM_010577 30.030 1.76E-06 Mus musculus integrin alpha 5 (fibronectin receptor alpha) (Itga5), mRNA [NM_010577]  
A_52_P223495 NM_010576 0.304 4.71E-02 Mus musculus integrin alpha 4 (Itga4), mRNA [NM_010576]  
A_51_P515056 NM_013565 0.316 9.78E-05 Mus musculus integrin alpha 3 (Itga3), mRNA [NM_013565]  
A_51_P230405 NM_013565 0.260 5.62E-05 Mus musculus integrin alpha 3 (Itga3), mRNA [NM_013565]  
A_52_P612019 NM_008396 3.300 3.55E-02 Mus musculus integrin alpha 2 (Itga2), mRNA [NM_008396]  
  1. aAverage fold difference is the ratio (n = 3, p value cutoff > .05) compares the expression levels of MAM-1 RNA normalized to Universal Mouse RNA to Bam1a RNA normalized to Universal Mouse RNA. RNA from MAM-1 or Bam1a was labeled in red color (cy5), universal RNA is labeled in green (cy3). Three independent RNA preparations per condition were analyzed on three separate chips and averaged; a confidence cutoff of >0.95 was used for the raw values of red/green before normalization. The fold change (**MAM-1 or Bam1a/**Universal Mouse) = Normalized ratio value(cy5/cy3). P-values are for the comparisons between the MAM-1 and Bam1a. The references associated with specific genes are indicated in the text of the manuscript.