Table 5

 Thirty common cancer genes differentially expressed more than threefold accompanied by a p value of <0.05 in at least one of the Dukes’ compared with normal mucosa

Probe set IDGene nameUG clusterCyto bandLeft colon: sigmoid and rectosigmoidRight colon: caecum
Nsig med*Bsig med†Csig med‡Avg FC Nvp Value NvAvg FC NvCp Value NvC††Ncae med**Bcae med††Ccae med‡‡Avg FC NvB§§p Value NvBAvg FC NvCp Value NvC
*Nsig med, median derived from “signal” of 10 normal mucosae of the sigmoid and rectosigmoid.
†Bsig med, median derived from “signal” of eight Dukes’ B adenocarcinomas of the sigmoid and rectosigmoid.
‡Csig med, median derived from “signal” of seven Dukes’ C adenocarcinomas of the sigmoid and rectosigmoid.
§Avg FC NvB, fold change, corresponding to the “signal ratio” of Nsig med/Bsig med or Nsig med/Csig med, was calculated from the “signal log ratio”.
¶p value NvB, probability that a variant would assume a value greater than or equal to the observed value strictly by chance.
**Ncae med, median derived from “signal” of 10 normal mucosae of the caecum.
††Bcae med, median derived from “signal” of five Dukes’ B adenocarcinomas of the caecum.
‡‡Ccae med, median derived from “signal” of five Dukes’ C adenocarcinomas of the caecum.
§§Avg FC NvB, fold change, corresponding to the “signal ratio” of Ncae med/Bcae med or Ncae med/Ccae med, was calculated from the “signal log ratio”.
UG cluster, UniGene cluster (http://www.ncbi.nlm.nih.gov/UniGene).
D87292_atTST thiosulfate sulfurtransferase (rhodanese)Hs.24826722q13.124921166489−2.10.002−4.50.00126491089749−1.00.766−3.60.008
HG2614-HT2710_atCollagen type viii alpha 135962441.70.0065.60.0011938691.30.7665.20.032
HG2755-HT2862_atT-Plastin581633212.00.0103.80.001471352841.40.3653.70.016
HG2981-HT3125_s_atEpican alt. splice 11358754.30.0015.60.0011678751.70.4844.10.032
HG4312-HT4582_s_atTranscription factor Iiia2688584623.00.0001.80.0012455567811.90.0753.10.032
J03910_rna1_atMetallothionein-IG (MT1G)Hs.17345116q132252409148−6.90.010−12.30.0011417219279−1.60.766−9.70.032
J04970_atCarboxypeptidase MHs.16976512q15602121−3.90.000−2.80.001552119−1.80.266−3.30.032
L12350_atThrombospondin 2 (THBS2)Hs.1086236q2722854482.00.00413.20.0012453136−1.60.9216.10.032
L12760_s_atPhosphoenolpyruvate carboxykinase (PCK1)Hs.187220q13.3175510640−4.20.001−11.00.0015103512−3.20.187−22.40.032
L22524_s_atMetalloproteinase; MMP-75375706.10.00183.20.0017621796.00.04423.00.032
L76465_atNAD+ dependent 15 hydroxyprostaglandin dehydrogenase (PGDH)Hs.773484q34–q352136121−4.50.001−7.70.0012114111−4.50.012−16.90.095
M10942_atMetallothionein-Ie gene (hMT-Ie)Hs.7417016q13989134302−5.20.002−3.70.001551228274−1.70.266−3.60.016
M12759_atIg J chain gene68711795−3.30.013−7.90.0011189227601.10.484−22.10.032
M12963_s_atClass I alcohol dehydrogenase (ADH1) alpha subunitHs.738434q21–q23172426059−7.10.008−38.80.001164728231−3.80.044−46.70.095
M22324_atAminopeptidase N/CD13Hs.123915q25–q26565117198−3.60.002−2.90.0012169357128−2.80.266−9.00.016
M26576_cds2_atAlpha-1 collagen type IV1053327642.00.0105.00.0011072334291.40.187−0.30.016
M77349_atTransforming growth factor-beta induced gene product (BIGH3)Hs.1187875q31307173526185.30.0008.00.00125358219332.10.187−0.20.008
M87860_atS-lac lectin L-14-II (LGALS2)2324012−5.30.001−7.40.00157357−1.00.766−7.80.016
S78187_atCDC25Hu2 = cdc25+ homologueHs.15375220p131296123044.20.0001.60.0062188146403.30.0243.40.032
U05861_atHepatic dihydrodiol dehydrogenase1735422−3.80.041−6.80.008994332−3.40.044−2.40.548
U14528_atSulfate transporter (DTD)Hs.299815q31–q3462013723−4.30.001−20.10.0016798518−1.80.619−28.10.032
U18018_atE1A enhancer binding protein (E1A-F)Hs.7771117q21543502269.40.0003.70.025673402613.30.0124.40.008
U20758_rna1_atOsteopontin geneHs.3134q21–q2511464632.20.01015.10.00115801204.60.00412.80.056
U70663_atZinc finger transcription factor hEZF (EZF)Hs.79349q316057644−6.20.001−8.80.00158712471−3.00.123−10.30.008
U77643_atK12 protein precursorHs.9565517q25422160148−3.00.000−3.40.001536146165−1.70.187−3.10.016
U78551_atGall bladder mucin MUC5BHs.10248211p154657526−3.80.010−5.50.0031544211114.70.044−3.40.548
X54925_atMMP1 matrix metalloproteinase 1; type I interstitial collagenaseHs.8316911q22.3121299457.30.00131.80.0051024824416.90.00436.70.056
X59770_atIL-1R2 type II interleukin-1 receptorHs.253332q12–q224274865−6.40.000−4.50.0011605466−1.70.365−2.90.016
X63629_atp cadherinHs.287716q221421413411.20.0006.60.001152181425.10.1238.40.016
Z80345_rna1_s_atSCADHs.12761012q22–qter28512141−3.00.001−7.50.00139918155−1.30.484−7.00.032