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Table 1 Expression of HER2/neu ErbB-2 Breast Cancer Signature genes in MAM-1 Co-cultures and the Bam1a cell line

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

   Expression Relative to Universal Mouse RNAa  
Agilent Accession Genbank Accession MAM Bam1a Gene Description and Symbol
Genes present in the tumor-specific HER-2/neu-Induced Gene Expression Signature described by Astolfi
A_51_P184886 NM_011920 5.27 19.10 Mus musculus ATP-binding cassette, sub-family G (WHITE), member 2 (Abcg2), mRNA [NM_011920]
A_52_P336142 NM_011920 4.90 17.77 Mus musculus ATP-binding cassette, sub-family G (WHITE), member 2 (Abcg2), mRNA [NM_011920]
A_51_P342567 NM_031185 9.10 6.60 Mus musculus A kinase (PRKA) anchor protein (gravin) 12 (Akap12), mRNA [NM_031185]
A_51_P445166 NM_019959 11.89 17.02 Mus musculus C1q and tumor necrosis factor related protein 1 (C1qtnf1), mRNA [NM_019959]
A_51_P455647 NM_009801 7.56 9.21 Mus musculus carbonic anhydrase 2 (Car2), mRNA [NM_009801]
A_51_P303160 NM_007482 14.32 23.23 Mus musculus arginase 1, liver (Arg1), mRNA [NM_007482]
A_52_P159232 NM_011926 20.60 24.52 Mus musculus CEA-related cell adhesion molecule 1 (Ceacam1), mRNA [NM_011926]
A_51_P183446 NM_001039185 10.69 12.16 Mus musculus CEA-related cell adhesion molecule 1, mRNA (cDNA clone MGC:18556 IMAGE:4218391), complete cds [BC016891]
A_51_P171728 NM_011926 9.77 12.34 Mus musculus CEA-related cell adhesion molecule 1 (Ceacam1), mRNA [NM_011926]
A_52_P240706 NM_007543 23.70 31.29 Mus musculus CEA-related cell adhesion molecule 2 (Ceacam2), mRNA [NM_007543]
A_51_P362066 NM_007695 8.34 3.89 Mus musculus chitinase 3-like 1 (Chi3l1), mRNA [NM_007695]
A_51_P495049 NM_009897 10.34 11.46 Mus musculus creatine kinase, mitochondrial 1, ubiquitous (Ckmt1), mRNA [NM_009897]
A_51_P343309 NM_009908 5.83 10.54 Mus musculus cytidine monophospho-N-acetylneuraminic acid synthetase (Cmas), mRNA [NM_009908]
A_52_P197963 NM_009936 7.33 10.23 Mus musculus procollagen, type IX, alpha 3 (Col9a3), mRNA [NM_009936]
A_52_P507877 NM_007729 41.31 30.23 Mus musculus procollagen, type XI, alpha 1 (Col11a1), mRNA [NM_007729]
A_51_P459477 NM_007729 34.68 28.45 Mus musculus procollagen, type XI, alpha 1 (Col11a1), mRNA [NM_007729]
A_51_P227280 NM_007786 53.04 56.89 Mus musculus casein kappa (Csnk), mRNA [NM_007786]
A_51_P227275 NM_007786 26.87 32.53 Mus musculus casein kappa (Csnk), mRNA [NM_007786]
A_52_P51078 NM_007801 23.49 35.47 Mus musculus cathepsin H (Ctsh), mRNA [NM_007801]
A_51_P275976 NM_010070   3.24 Mus musculus docking protein 1 (Dok1), mRNA [NM_010070]
A_52_P366842 NM_010070 2.49 4.94 Mus musculus docking protein 1 (Dok1), mRNA [NM_010070]
A_51_P158037 NM_013505 11.59 12.52 Mus musculus desmocollin 2 (Dsc2), mRNA [NM_013505]
A_52_P157158 NM_013505 42.42 46.62 Mus musculus desmocollin 2 (Dsc2), mRNA [NM_013505]
A_52_P252931 NM_013505 107.26 265.33 Mus musculus desmocollin 2 (Dsc2), mRNA [NM_013505]
A_51_P502614 NM_026268 4.28 6.46 Mus musculus dual specificity phosphatase 6 (Dusp6), mRNA [NM_026268]
A_51_P455866 NM_010125 27.80 29.60 Mus musculus E74-like factor 5 (Elf5), mRNA [NM_010125]
A_51_P307979 NM_007960   2.46 Mus musculus ets variant gene 1 (Etv1), mRNA [NM_007960]
A_51_P246166 NM_007969 10.06 10.23 Mus musculus extracellular proteinase inhibitor (Expi), mRNA [NM_007969]
A_52_P329207 NM_007969 13.14 12.84 Mus musculus extracellular proteinase inhibitor (Expi), mRNA [NM_007969]
A_51_P329394 NM_008034 6.64 8.48 Mus musculus folate receptor 1 (adult) (Folr1), mRNA [NM_008034]
A_52_P377791 NM_008557 30.34 40.63 Mus musculus FXYD domain-containing ion transport regulator 3 (Fxyd3), mRNA [NM_008557]
A_51_P282538 NM_008077 28.43 73.47 Mus musculus glutamic acid decarboxylase 1 (Gad1), mRNA [NM_008077]
A_52_P144310 NM_008077 27.33 68.46 Mus musculus glutamic acid decarboxylase 1 (Gad1), mRNA [NM_008077]
A_51_P486810 NM_030677 13.90 14.97 Mus musculus glutathione peroxidase 2 (Gpx2), mRNA [NM_030677]
A_51_P258409 NM_010423 13.98 30.78 Mus musculus hairy/enhancer-of-split related with YRPW motif 1 (Hey1), mRNA [NM_010423]
A_51_P365152 NM_010474 23.53 48.48 Mus musculus heparan sulfate (glucosamine) 3-O-sulfotransferase 1 (Hs3st1), mRNA [NM_010474]
A_52_P281702 NM_010518 2.12 3.08 Mus musculus insulin-like growth factor binding protein 5 (Igfbp5), mRNA [NM_010518]
A_51_P204153 NM_010518 4.25 10.70 Mus musculus insulin-like growth factor binding protein 5 (Igfbp5), mRNA [NM_010518]
A_51_P510156 NM_008491 9.56 10.11 Mus musculus lipocalin 2 (Lcn2), mRNA [NM_008491]
A_52_P153864 NM_010723 2.77 3.75 Mus musculus LIM domain only 4 (Lmo4), mRNA [NM_010723]
A_51_P394190 NM_010723 3.05 4.24 Mus musculus LIM domain only 4 (Lmo4), mRNA [NM_010723]
A_52_P415168 NM_019394 8.35 8.26 Mus musculus melanoma inhibitory activity 1 (Mia1), mRNA [NM_019394]
A_52_P415167 NM_019394 18.65 22.26 Mus musculus melanoma inhibitory activity 1 (Mia1), mRNA [NM_019394]
A_52_P174346 NM_019394 7.84 8.15 Mus musculus melanoma inhibitory activity 1 (Mia1), mRNA [NM_019394]
A_51_P220062 NM_008609 10.60 15.42 Mus musculus matrix metalloproteinase 15 (Mmp15), mRNA [NM_008609]
A_51_P139780 NM_009402 6.81 7.64 Mus musculus peptidoglycan recognition protein 1 (Pglyrp1), mRNA [NM_009402]
A_51_P195958 NM_009344 3.26 6.05 Mus musculus pleckstrin homology-like domain, family A, member 1 (Phlda1), mRNA [NM_009344]
A_52_P418791 NM_011254 15.11 16.38 Mus musculus retinol binding protein 1, cellular (Rbp1), mRNA [NM_011254]
A_51_P423484 NM_011254 8.26 7.45 Mus musculus retinol binding protein 1, cellular (Rbp1), mRNA [NM_011254]
A_52_P197215 NM_028777 2.76 4.29 Mus musculus SEC14-like 1 (S. cerevisiae) (Sec14l1), mRNA [NM_028777]
A_52_P197223 NM_028777 3.32 5.72 Mus musculus SEC14-like 1 (S. cerevisiae) (Sec14l1), mRNA [NM_028777]
A_51_P268094 NM_009255 22.21 38.32 Mus musculus serine (or cysteine) proteinase inhibitor, clade E, member 2 (Serpine2), mRNA [NM_009255]
A_52_P637988 NM_009199 40.88 62.00 Mus musculus solute carrier family 1 (neuronal/epithelial high affinity glutamate transporter, system Xag), member 1 (Slc1a1), mRNA [NM_009199]
A_51_P110759 NM_009199 20.06 26.16 Mus musculus solute carrier family 1 (neuronal/epithelial high affinity glutamate transporter, system Xag), member 1 (Slc1a1), mRNA [NM_009199]
A_52_P426605 NM_021301 23.10 30.57 Mus musculus solute carrier family 15 (H+/peptide transporter), member 2 (Slc15a2), mRNA [NM_021301]
A_51_P107362 NM_007706 13.23 14.79 Mus musculus suppressor of cytokine signaling 2 (Socs2), mRNA [NM_007706]
A_51_P346704 XM_128139 10.67 11.19 Mus musculus SRY-box containing gene 10, mRNA (cDNA clone MGC:32314 IMAGE:5027211), complete cds. [BC023356]
A_52_P192625 XM_128139 23.80 36.33 Mus musculus SRY-box containing gene 10, mRNA (cDNA clone MGC:32314 IMAGE:5027211), complete cds. [BC023356]
A_52_P161630 NM_145933   4.23 Mus musculus beta galactoside alpha 2,6 sialyltransferase 1 (St6gal1), mRNA [NM_145933]
A_51_P101375 NM_145933 2.35 5.29 Mus musculus beta galactoside alpha 2,6 sialyltransferase 1 (St6gal1), mRNA [NM_145933]
A_51_P183940 NM_016866 2.21 3.02 Mus musculus serine/threonine kinase 39, STE20/SPS1 homolog (yeast) (Stk39), mRNA [NM_016866]
A_52_P447944 NM_008532 5.04 8.96 Mus musculus tumor-associated calcium signal transducer 1 (Tacstd1), mRNA [NM_008532]
A_51_P418820 NM_009335 40.16 37.90 Mus musculus transcription factor AP-2, gamma (Tcfap2c), mRNA [NM_009335]
A_51_P338262 NM_011619 5.37 8.17 Mus musculus troponin T2, cardiac (Tnnt2), mRNA [NM_011619]
A_51_P482503 NM_009413 21.46 34.02 Mus musculus tumor protein D52-like 1 (Tpd52l1), mRNA [NM_009413]
A_51_P506822 NM_011674 42.90 81.82 Mus musculus UDP galactosyltransferase 8A (Ugt8a), mRNA [NM_011674]
A_52_P439263 NM_011674 56.91 70.50 Mus musculus UDP galactosyltransferase 8A (Ugt8a), mRNA [NM_011674]
Genes expressed in common with the mouse orthologs of the human "intrinsic" gene list of published by Sorlie
A_51_P311038 NM_001024139 7.11 9.21 Mus musculus a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 15 (Adamts15), mRNA [NM_001024139]
A_51_P366811 NM_007470 45.17 36.20 Mus musculus apolipoprotein D (Apod), mRNA [NM_007470]
A_51_P163015 NM_172309 2.77 14.02 Mus musculus aryl hydrocarbon receptor nuclear translocator-like 2 (Arntl2), mRNA [NM_172309]
A_51_P455647 NM_009801 7.57 9.21 Mus musculus carbonic anhydrase 2 (Car2), mRNA [NM_009801]
A_51_P302823 NM_019686 4.02 11.39 Mus musculus calcium and integrin binding family member 2 (Cib2), mRNA [NM_019686]
A_51_P165185 NM_016887 11.54 15.50 Mus musculus claudin 7 (Cldn7), mRNA [NM_016887]
A_52_P507877 NM_007729 41.32 30.23 Mus musculus procollagen, type XI, alpha 1 (Col11a1), mRNA [NM_007729]
A_51_P459477 NM_007729 34.69 28.45 Mus musculus procollagen, type XI, alpha 1 (Col11a1), mRNA [NM_007729]
A_51_P502614 NM_026268 4.28 6.46 Mus musculus dual specificity phosphatase 6 (Dusp6), mRNA [NM_026268]
A_51_P116940 NM_007940 15.92 5.95 Mus musculus epoxide hydrolase 2, cytoplasmic (Ephx2), mRNA [NM_007940]
A_51_P455932 NM_007974 12.81 33.87 Mus musculus coagulation factor II (thrombin) receptor-like 1 (F2rl1), mRNA [NM_007974]
A_52_P192418 NM_010175 2.63 4.90 Mus musculus Fas (TNFRSF6)-associated via death domain (Fadd), mRNA [NM_010175]
A_51_P382925 NM_010175 2.16 3.61 Mus musculus Fas (TNFRSF6)-associated via death domain (Fadd), mRNA [NM_010175]
A_52_P100252 NM_007988 3.23 3.40 Mus musculus clone:A630082H08 product:fatty acid synthase, full insert sequence. [AK080374]
A_52_P136162 NM_010206 2.27 4.37 Mus musculus fibroblast growth factor receptor 1 (Fgfr1), mRNA [NM_010206]
A_52_P668810 NM_010206   3.81 Mus musculus fibroblast growth factor receptor 1 (Fgfr1), mRNA [NM_010206]
A_51_P335000 NM_010211   5.05 Mus musculus four and a half LIM domains 1 (Fhl1), mRNA [NM_010211]
A_51_P329394 NM_008034 6.64 8.48 Mus musculus folate receptor 1 (adult) (Folr1), mRNA [NM_008034]
A_52_P217710 NM_008056   3.08 Mus musculus frizzled homolog 6 (Drosophila) (Fzd6), mRNA [NM_008056]
A_51_P282538 NM_008077 28.43 73.47 Mus musculus glutamic acid decarboxylase 1 (Gad1), mRNA [NM_008077]
A_52_P144310 NM_008077 27.33 68.46 Mus musculus glutamic acid decarboxylase 1 (Gad1), mRNA [NM_008077]
A_51_P380005 NM_015736 32.95 69.29 Mus musculus UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 3 (Galnt3), mRNA [NM_015736]
A_51_P379997 NM_015736 38.50 82.09 Mus musculus UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 3 (Galnt3), mRNA [NM_015736]
A_51_P462422 NM_008124   5.07 Mus musculus gap junction membrane channel protein beta 1 (Gjb1), mRNA [NM_008124]
A_52_P16419 NM_010271 2.43 6.66 Mus musculus glycerol-3-phosphate dehydrogenase 1 (soluble) (Gpd1), mRNA [NM_010271]
A_52_P415996 NM_008184   6.29 Mus musculus glutathione S-transferase, mu 6 (Gstm6), mRNA [NM_008184]
A_51_P179664 NM_008185 3.67 6.80 Mus musculus glutathione S-transferase, theta 1 (Gstt1), mRNA [NM_008185]
A_52_P281702 NM_010518 2.12 3.08 Mus musculus insulin-like growth factor binding protein 5 (Igfbp5), mRNA [NM_010518]
A_51_P204153 NM_010518 4.25 10.70 Mus musculus insulin-like growth factor binding protein 5 (Igfbp5), mRNA [NM_010518]
A_52_P401386 NM_010593 3.74 5.28 Mus musculus junction plakoglobin (Jup), mRNA [NM_010593]
A_52_P642488 NM_008430 24.28 26.37 Mus musculus potassium channel, subfamily K, member 1 (Kcnk1), mRNA [NM_008430]
A_51_P307964 NM_010662 3.11 6.39 Mus musculus keratin complex 1, acidic, gene 13 (Krt1-13), mRNA [NM_010662]
A_51_P324814 NM_010664 2.93 3.89 Mus musculus keratin complex 1, acidic, gene 18 (Krt1-18), mRNA [NM_010664]
A_52_P410685 NM_033073 12.42 14.59 Mus musculus keratin complex 2, basic, gene 7 (Krt2-7), mRNA [NM_033073]
A_51_P242400 NM_031170 2.56 3.75 Mus musculus keratin complex 2, basic, gene 8 (Krt2-8), mRNA [NM_031170]
A_51_P174943 NM_008485 6.90 10.66 Mus musculus laminin, gamma 2 (Lamc2), mRNA [NM_008485]
A_51_P220062 NM_008609 10.60 15.42 Mus musculus matrix metalloproteinase 15 (Mmp15), mRNA [NM_008609]
A_51_P514085 NM_013606 3.75 6.35 Mus musculus myxovirus (influenza virus) resistance 2 (Mx2), mRNA [NM_013606]
A_52_P608097 NM_008756 17.70 41.15 Mus musculus occludin (Ocln), mRNA [NM_008756]
A_51_P486150 NM_008756 10.05 12.72 Mus musculus occludin (Ocln), mRNA [NM_008756]
A_52_P458279 NM_011169 15.09 21.23 Mus musculus prolactin receptor (Prlr), mRNA [NM_011169]
A_51_P248345 NM_009334   17.92 Mus musculus transcription factor AP-2 beta (Tcfap2b), transcript variant 1, mRNA [NM_009334]
A_51_P418820 NM_009335 40.16 37.90 Mus musculus transcription factor AP-2, gamma (Tcfap2c), mRNA [NM_009335]
A_51_P240614 NM_008536 3.79 5.43 Mus musculus transmembrane 4 superfamily member 1 (Tm4sf1), mRNA [NM_008536]
A_51_P482503 NM_009413 21.46 34.02 Mus musculus tumor protein D52-like 1 (Tpd52l1), mRNA [NM_009413]
A_51_P106059 NM_009423 2.81 3.48 Mus musculus Tnf receptor associated factor 4 (Traf4), mRNA [NM_009423]
A_52_P78403 NM_009423 2.90 5.78 Mus musculus Tnf receptor associated factor 4 (Traf4), mRNA [NM_009423]
Genes expressed in common with the MMTV/neu mammary tumor gene signature described by Landis
A_51_P320852 NM_007657 2.52 7.50 Mus musculus CD9 antigen (Cd9), mRNA [NM_007657]
A_51_P242265 NM_009950 2.45 4.36 Mus musculus CASP2 and RIPK1 domain containing adaptor with death domain (Cradd), mRNA [NM_009950]
A_52_P559779 NM_007883 17.30 22.26 Mus musculus desmoglein 2 (Dsg2), mRNA [NM_007883]
A_51_P249848 NM_007883 11.40 13.77 Mus musculus desmoglein 2 (Dsg2), mRNA [NM_007883]
A_52_P88091 NM_007883 22.00 38.20 Mus musculus desmoglein 2 (Dsg2), mRNA [NM_007883]
A_52_P601757 NM_007883 76.45 101.83 Mus musculus desmoglein 2, mRNA (cDNA clone IMAGE:4036406), partial cds [BC034056]
A_51_P502614 NM_026268 4.28 6.46 Mus musculus dual specificity phosphatase 6 (Dusp6), mRNA [NM_026268]
A_51_P246166 NM_007969 10.06 10.23 Mus musculus extracellular proteinase inhibitor (Expi), mRNA [NM_007969]
A_52_P329207 NM_007969 13.14 12.84 Mus musculus extracellular proteinase inhibitor (Expi), mRNA [NM_007969]
A_51_P329394 NM_008034 6.64 8.48 Mus musculus folate receptor 1 (adult) (Folr1), mRNA [NM_008034]
A_51_P352303 NM_011983 5.94 8.58 Mus musculus homer homolog 2 (Drosophila) (Homer2), mRNA [NM_011983]
A_52_P176573 NM_011983 7.52 12.27 Mus musculus homer homolog 2 (Drosophila) (Homer2), mRNA [NM_011983]
A_51_P510156 NM_008491 9.56 10.11 Mus musculus lipocalin 2 (Lcn2), mRNA [NM_008491]
A_52_P382785 NM_033525 3.71 12.17 Mus musculus nephronectin (Npnt), mRNA [NM_033525]
A_51_P289889 NM_033525 3.57 9.38 Mus musculus nephronectin (Npnt), mRNA [NM_033525]
A_52_P17556 NM_134249 6.84 18.37 Mus musculus T-cell immunoglobulin and mucin domain containing 2 (Timd2), mRNA [NM_134249]
A_51_P500906 NM_134249 12.27 24.24 Mus musculus T-cell immunoglobulin and mucin domain containing 2 (Timd2), mRNA [NM_134249]
A_51_P482503 NM_009413 21.46 34.02 Mus musculus tumor protein D52-like 1 (Tpd52l1), mRNA [NM_009413]
Expression of genes associated with the human HER2/neu chromosome 17q amplicon by Bertucci
A_51_P317176 NM_009971 12.40 13.05 Mus musculus colony stimulating factor 3 (granulocyte) (Csf3), mRNA [NM_009971]
A_51_P216179 NM_010152 4.71 8.69 Mus musculus v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian) (Erbb2), transcript variant 2, mRNA [NM_010152]
A_51_P230382 NM_008815 2.63 3.66 Mus musculus ets variant gene 4 (E1A enhancer binding protein, E1AF) (Etv4), mRNA [NM_008815]
A_51_P368823 NM_010346 3.09 4.64 Mus musculus growth factor receptor bound protein 7 (Grb7), mRNA [NM_010346]
A_52_P401386 NM_010593 3.74 5.28 Mus musculus junction plakoglobin (Jup), mRNA [NM_010593]
A_52_P567306 NM_010688 2.95 4.98 Mus musculus LIM and SH3 protein 1 (Lasp1), mRNA [NM_010688]
A_51_P182462 NM_010688 2.46 3.44 Mus musculus LIM and SH3 protein 1 (Lasp1), mRNA [NM_010688]
A_51_P387123 NM_011854 2.77 4.06 Mus musculus 2'-5' oligoadenylate synthetase-like 2 (Oasl2), mRNA [NM_011854]
  1. aAverage fold difference is the ratio (n = 3, p value cutoff > .05) MAM-1 or Bam1a RNA 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). The MAM-1 and Bam1a transcriptomes include genes that are differentially increased relative to the Universal mouse RNA by at least 2-fold.