Environ Health PerspectEnviron. Health PerspectEnvironmental Health Perspectives0091-67651552-9924National Institue of Environmental Health Sciences15289156124747110.1289/ehp.7028ehp0112-001137ResearchCommentariesThe Need to Decide If All Estrogens Are Intrinsically SimilarMoggsJonathan G.AshbyJohnTinwellHelenLimFei LingMooreDavid J.KimberIanOrphanidesGeorgeSyngenta CTL, Alderley Park, Cheshire, United KingdomAddress correspondence to J.G. Moggs, Syngenta CTL, Alderley Park, Cheshire, SK10 4TJ UK. Telephone: 44-1625-519315. Fax: 44-1625-585715. E-mail: jonathan.moggs@syngenta.com

We thank A. Soames for the histopathology data, I. Kupershmidt and E. Hunter (Silicon Genetics) for advice on statistical analysis of microarray data, and T. Barlow (Food Standards Agency) for critical comments.

This work was partially supported by the U.K. Food Standards Agency.

The authors declare they have no competing financial interests.

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We used gene expression profiling to investigate whether the molecular effects induced by estrogens of different provenance are intrinsically similar. In this article we show that the physiologic estrogen 17β-estradiol, the phytoestrogen genistein, and the synthetic estrogen diethylstilbestrol alter the expression of the same 179 genes in the intact immature mouse uterus under conditions where each chemical has produced an equivalent gravimetric and histologic uterotrophic effect, using the standard 3-day assay protocol. Data are also presented indicating the limitations associated with comparison of gene expression profiles for different chemicals at times before the uterotrophic effects are fully realized. We conclude that the case has yet to be made for regarding synthetic estrogens as presenting a unique human hazard compared with phytoestrogens and physiologic estrogens.

diethylstilbestrolestrogengene expressiongenisteinmicroarrayphytoestrogentoxicogenomicsuterus

The question of whether phytoestrogens and synthetic estrogens are toxicologically similar, or intrinsically different, presents a challenge to all involved in human hazard and risk assessments. Although there is a general concern that exposure to nanogram or microgram amounts of environmental estrogens may be associated with adverse health effects, in the public mind there is a widespread belief that foods and dietary supplements containing milligram quantities of phytoestrogens confer only health benefits. An implicit distinction therefore seems to have been drawn between synthetic and plant-derived estrogens—a belief sustained in the public mind by the assumption that natural is good and synthetic is bad—but an untested and potentially misleading notion for those involved with science-based human hazard/risk assessments.

Phytoestrogens and synthetic estrogens are generally considered separately in the literature. For example, Howdeshell et al. (1999) suggested a possible association between the advance in first estrus observed in mice exposed in utero to 2.4 μg/kg of the synthetic environmental estrogen bisphenol A and reports of an increased incidence of hypospadias in boys (Paulozzi et al. 1997) and the earlier sexual maturation of girls (Herman-Giddens et al. 1997)—the implication being that synthetic estrogens present a greater hazard than the much higher levels of phytoestrogens being consumed by those same children. In contrast, there are reports of an increased incidence of hypospadias in boys born to vegetarians (North and Golding 2000), of alterations in the menstrual cycle (Cassidy et al. 1994), and of reduced breast cancer incidences (Messina 1999) among women eating diets rich in phytoestrogens. Support for these epidemiologic observations comes from experimental studies indicating that advances in sexual development in rodents can be induced by their exposure to phytoestrogens (Casanova et al. 1999; Cassidy and Faughnan 2000; Safe et al. 2002). In contrast to these separate lines of inquiry, Newbold and colleagues have evaluated potential similarities between natural and synthetic estrogens. In seminal studies, they demonstrated that neonatal exposure of female mice to equipotent uterotrophic doses of the phytoestrogen genistein (GEN; Figure 1) or the synthetic estrogen diethylstilbestrol (DES) leads to an identical incidence of uterine adenomas at 18 months of age (Newbold et al. 2001). However, in attempting to draw parallels, or distinctions, between phytoestrogens and synthetic estrogens, it is imperative to consider growing awareness of the complexity of estrogen signaling pathway and the pleuripotential biologic activities of most organic chemicals—irrespective of their origin.

Estrogen signaling in mammalian cells is primarily mediated at the molecular level by two members of the nuclear receptor superfamily—estrogen receptors alpha (ER-α) and beta (ER-β). Ligand-activated ER-α and ER-β function as transcription factors, in conjunction with numerous coregulatory proteins, in order to activate or repress the transcription of ER-responsive genes (Hall et al. 2001; Moggs and Orphanides 2001). There is considerable variation in the binding affinity of ER-α and ER-β among different estrogens (Kuiper et al. 1998). In the case of the chemicals studied here, the physiologic estrogen 17β-estradiol (E2) and DES bind with a similar affinity to ER-α and ER-β, whereas GEN binds with approximately 20-fold higher affinity to ER-β than to ER-β (Kuiper et al. 1998). Concerning nonhormonal properties of the test chemicals (most of which have only be defined in vitro), GEN inhibits a range of enzymes, including tyrosine kinases (Akiyama et al. 1987), nitric oxide synthase (Duarte et al. 1997), and topoisomerase II (Okura et al. 1988), and also decreases calcium-channel activity (Potier and Rovira 1999), lipid peroxidation (Arora et al. 1998), and diacylglycerol synthesis (Dean et al. 1989). Likewise, DES is reported to induce aneuploidy in mammalian cells (Aardema et al. 1998) and to bind to rat liver DNA (Williams et al. 1993). More recently, some phytoestrogens were reported to inhibit the aromatase-mediated conversion of testosterone to E2 in vitro (Almstrup et al. 2002), and equol, the major circulating estrogenic metabolite associated with the dietary ingestion of phytoestrogens, is reported to selectively sequester dihydrotestosterone and thereby to act as a functional antiandrogen in vivo (Lund et al. 2004).

In order to advance understanding in this area, we decided to compare the genes expressed in the immature mouse uterus when it had grown in response to treatment with the estrogens E2, DES, and GEN. The immature mouse uterus was selected for our analysis because it is a major estrogen-responsive organ and forms the basis for a reference assay of estrogenic activity (Owens and Ashby 2002), including carcinogenesis (Newbold et al. 2001). Furthermore, it expresses both ER-α and ER-β (Weihua et al. 2000) and the androgen receptor (Frasor et al. 2003). We initially conducted a global analysis of gene expression in the mouse uterus at 1, 2, 4, 8, 24, 48, and 72 hr after exposure to a single high dose of either GEN (250 mg/kg) or E2 (400 μg/kg). These single high doses yielded a sustained uterotrophic response over 72 hr (Figure 2A) and were selected to avoid the complex transcriptional program that may result from the standard uterotrophic assay exposure regime in which each test compound is dosed by repeated administration on 3 consecutive days (Odum et al. 1997). Groups of 10 sexually immature mice [Alpk:APfCD-1; 19/20 days of age; maintained on RM1 diet (Special Diets Services Ltd., Witham, Essex, UK)] received a single subcutaneous injection of each compound or the test vehicle [arachis oil (AO); 5 mL/kg], and uterine RNA was isolated and pooled by group at each of the seven time points to determine gene expression levels among the 12,488 mouse genes represented on the Affymetrix MG-U74Av2 GeneChip (Affymetrix, High Wycombe, UK). Transcript profiling was performed using MG-U74Av2 GeneChip and Microarray Analysis Suite 5.0 (Affymetrix). Normalization and hierarchical clustering were performed with GeneSpring 6.0 (Silicon Genetics, Redwood City, CA, USA). MIAME (Minimum Information About a Microarray Experiment)-compliant microarray data are available as supplementary information and submitted to the Gene Expression Omnibus (GEO) database (GEO 2004). These data were analyzed using unsupervised hierarchical clustering and yielded temporal relationships between the expression profiles of 3,450 genes that were either up- or down-regulated (> 1.5-fold) by E2 and/or GEN (Figure 2B). Each chemical induced a similar, multistage transcriptional response (Figure 2B), although it is noteworthy that we observed variations in the magnitude and timing of both early (e.g., c-fos) and late (e.g., lactotransferrin) ER-responsive genes during the uterotrophic responses induced by E2 and GEN (Figure 2C).

A detailed description of the molecular functions of the genes affected, together with their association with physiologic changes during uterine growth, has been reported (Orphanides et al. 2003) and will be described in more detail in a future publication (Moggs et al., unpublished data).

These observations suggest that GEN does not induce “off-target” ER-independent transcriptional responses, that is, those associated with the properties of GEN other than estrogenicity. Furthermore, there was no evidence for the topoisomerase II–inhibiting properties of GEN in the bone marrow of the present mice despite demonstration of the sensitivity of that tissue to the potent micronucleus-inducing activity of the topoisomerase II inhibitor etoposide (data not shown). Together, these data led us to question whether a synthetic estrogen such as DES would also induce similar transcriptional responses in the immature mouse uterus.

In order to avoid temporal vagaries in gene expression (e.g., Figure 2C), we decided to anchor our transcript profiling data to the phenotype of the grown uterus by employing equipotent uterotrophic doses of E2, GEN, and DES. We compared the global gene expression profiles in the uteri of intact immature mice stimulated with three daily low doses of either GEN, DES, or E2, with an exposure regimen the same as that used in a standard 3-day uterotrophic assay (Odum et al. 1997). The route of administration and the doses of GEN and DES used were as described by Newbold et al. (2001) in their equivalent-outcome carcinogenicity bioassays of these two chemicals. Three independent replicates of four groups of sexually immature mice (Alpk:APfCD-1; 19/20 days of age; maintained on RM1 diet) received three daily subcutaneous injections of GEN (50 mg/kg), E2 (2.5 μg/kg), or DES (2 μg/kg). Control animals received the vehicle, AO (5 mL/kg). These doses elicited similar uterotrophic responses (72 hr after the initial dose; Figure 3A, Table 1) and identical histologic changes in the uteri of the treated animals (Table 1). Uterine RNA was isolated and pooled for each of the 12 groups and analyzed for changes in gene expression levels using the same Affymetrix microarray of 12,488 mouse genes. The data were analyzed using two independent statistical methods. First, unsupervised hierarchical clustering defined the global relationships (Euclidean distances) between the 12 gene expression profiles (Figure 3B). The three control groups clustered under one node, whereas the chemical treatment groups formed a separate node of compound-independent clusters, indicating equal similarity within and between the transcriptional responses induced by the three estrogens (Figure 3B). One-way analysis of variance (ANOVA), with Bonferroni (Holm 1979) correction (familywise error rate < 0.05) to minimize false positives, identified 179 genes where expression levels were altered by one or more chemical treatments (Figure 3C). Remarkably, Tukey post hoc testing revealed that all of these genes were affected in all nine compound treatment groups.

Table 2 highlights the high degree of similarity between the transcriptional responses to each of the three estrogens. These include established estrogen-responsive genes such as lactotransferrin, complement component 3, c-fos, small proline-rich protein 2A, and keratoepithelin (Hewitt et al. 2003; Naciff et al. 2003), together with many genes that have not previously been associated with estrogenicity (Table 2).

Although these three estrogens can alter the expression of some genes with different magnitudes [e.g., peptidyl arginine deiminase II is up-regulated to a lesser extent by E2 (1.86-fold ± 0.27) relative to GEN (9.11-fold ± 0.33) and DES (5.15-fold ± 1.53); Table 2], the present data show that the same genes are affected during equivalent uterotrophic responses. Previous studies have revealed both similarities and differences between transcriptional responses induced at a single time point after exposure to E2 and DES in the uteri of immature ovariectomized mice (Watanabe et al. 2003) and after exposure to either GEN, bisphenol A, or 17α-ethynyl estradiol in the reproductive tract of intact adult rats (Naciff et al. 2002). We suggest that these reported differences most probably arise from dose-dependent variations in the magnitude and kinetics of gene expression (Figure 2C), rather than from the operation of distinct mechanisms of estrogenic action.

Our data indicate that estrogens of differing provenance may have in common the potential for both beneficial and adverse health effects. This highlights the need for an holistic approach to hazard assessment wherein preconceptions are replaced by an objective assessment of the likely perturbations of physiologic functions caused by combined exposures to physiologic, synthetic, and plant-derived estrogens. This need is reinforced by data showing that plasma concentrations of isoflavones in infants fed soy formula are approximately 200 times higher than for those fed human milk (Setchell et al. 1997), by the estimated daily intake of approximately 29 mg of phytoestrogens for individuals taking dietary supplements (Committee on Toxicity of Chemicals in Food, Consumer Products and the Environment 2003), and by the demonstration that estrogens of different provenance can act additively in the rodent uterus (Tinwell and Ashby 2004).

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(<italic>A</italic>) Blotted uterine weights (mean ± SD) of sexually immature mice (<italic>n</italic> = 10/group) at different times after a single subcutaneous dose of E<sub>2</sub> (400 μg/kg), GEN (250 mg/kg), or AO (control; 5 mL/kg). See text for details of experiments. (<italic>B</italic>) Temporal expression profiles of 3,450 genes up-regulated or repressed (> 1.5-fold) by either E<sub>2</sub> (400 μg/kg) or GEN (250 mg/kg) at one or more of seven different time points. The magnitude of altered gene expression (fold change vs. time-matched vehicle control) is indicated by color; genes are grouped according to similarity of their temporal expression profiles (Pearson correlation-based hierarchical clustering). (<italic>C</italic>) Northern blot analysis of temporal expression pattern of early (c-<italic>fos</italic>) and late (lactotransferrin) estrogen-responsive genes; the fold induction of gene expression relative to time-matched vehicle controls was calculated after data were normalized to the expression of the control gene <italic>RPB1</italic> (accession number NM_009089). <break/>*<italic>p</italic> < 0.05; <break/>**<italic>p</italic> < 0.01; two-sided Student <italic>t</italic>-test.Equivalence of biologic responses induced in the mouse uterus by E<sub>2</sub> (E), GEN (G), and DES (D). (<italic>A</italic>) Blotted uterine weights (mean ± SD) of three independent replicate groups (1–3) of sexually immature mice (<italic>n</italic> = 4/group) after three daily subcutaneous injections of either GEN (50 mg/kg), E<sub>2</sub> (2.5 μg/kg), DES (2 μg/kg), or AO [control (C); 5 mL/kg]. (<italic>B</italic>) Unsupervised Euclidean-distance–based hierarchical clustering of 4,134 expressed genes. (<italic>C</italic>) Near-identical gene expression profiles induced by the three estrogens 72 hr after equipotent uterotrophic doses. Significant changes in gene expression induced by one or more of the three estrogens were identified by one-way ANOVA (parametric test, assuming equal variance). The magnitude of altered gene expression (fold change vs. vehicle control) is indicated by color.

Blotted uterine weights and endometrial and epithelial cell heights (mean ± SD) after exposure to E2, GEN, or DES for 3 consecutive days.a

Cell height (μm)
CompoundDose (per kg)Blotted uterine weight (mg)EndometriumEpithelium
AO5 mL13.0 ± 2.4159.0 ± 23.1 (11)11.4 ± 1.1
E22.5 μg45.3 ± 8.6*246.1 ± 52.4* (9)23.3 ± 1.4*
GEN50 mg39.8 ± 5.3*273.7 ± 63.3* (12)23.7 ± 3.1*
DES2.0 μg49.8 ± 13.0*273.2 ± 55.9* (10)22.6 ± 4.0*

There were 12 animals/group, but not all of the histopathology samples were suitable for analyses; numbers in parentheses indicate the number of animals per group from which the histology data were generated.

Data were assessed for statistical significance using a two-sided Student t-test:

p < 0.01.

Quantitative data for 179 differentially expressed genes (from Figure 3C) regulated in the mouse uterus by all three estrogens (E2, GEN, and DES).a

Fold change in expression (mean ± SD)
Gene nameGenBank accession no.E2GENDES
Up-regulated genes
 Solute carrier family 9a3r1U740791.8 ± 0.012.0 ± 0.12.0 ± 0.2
 Keratin complex 2–8X156622.6 ± 0.23.1 ± 0.23.1 ± 0.3
 Laminin beta 3U432984.3 ± 0.15.5 ± 1.15.3 ± 0.7
 Claudin 7AF0878254.5 ± 0.56.5 ± 1.05.8 ± 0.6
 bHLH-Zip transcription factorU495072.6 ± 0.33.1 ± 0.32.9 ± 0.1
 RIKEN cDNA 1200008D14AW2089383.0 ± 0.33.5 ± 0.13.3 ± 0.3
 Basic HLH-domain containing, class B2Y078365.9 ± 1.06.6 ± 0.96.6 ± 0.8
 RIKEN cDNA 9930104H07AW1223103.0 ± 0.33.2 ± 0.43.3 ± 0.1
 Fucosyltransferase 2AF06479227.5 ± 1.234.6 ± 8.536.7 ± 5.5
 Deleted in polyposis 1U281681.8 ± 0.12.0 ± 0.022.0 ± 0.1
 Microsomal glutathione S-transferase 3AI8434482.9 ± 0.23.3 ± 0.63.3 ± 0.1
 Tumor-associated Ca signal transducer 2Y088304.0 ± 0.34.6 ± 0.94.6 ± 0.3
 Calpain 5Y106565.5 ± 0.46.3 ± 1.06.6 ± 0.6
 Mitochondrial creatine kinaseZ139699.7 ± 1.112.2 ± 2.113.1 ± 1.8
 ATPase 6v1a1AW1237652.0 ± 0.12.1 ± 0.22.1 ± 0.2
 Tumor-associated Ca signal transducer 2AI5638548.0 ± 0.49.2 ± 1.08.5 ± 0.4
 Lymphocyte antigen 6 complex, locus AX046537.8 ± 0.98.8 ± 0.38.5 ± 0.4
 Chloride channel calcium-activated 3AV37337826.4 ± 3.426.7 ± 1.026.2 ± 3.9
 Small proline-rich protein 2IAJ00556723.9 ± 1.524.7 ± 1.323.6 ± 1.6
 Oncoprotein induced transcript 1AA61507519.0 ± 3.120.0 ± 1.218.9 ± 2.5
 Small proline-rich protein 2FAJ00556459.8 ± 8.465.8 ± 1.160.6 ± 2.6
 Small proline-rich protein 2EAJ00556312.0 ± 1.012.9 ± 0.812.1 ± 0.9
 Mucin 1M846838.3 ± 0.68.6 ± 0.38.5 ± 0.5
 Lipoocalin 2X81627150.3 ± 15.0175.7 ± 10.5162.8 ± 6.5
 RIKEN cDNA 2210409B01AF1099063.5 ± 0.64.0 ± 0.33.8 ± 0.8
 Interferon-activated gene 202AM314187.9 ± 1.09.8 ± 2.58.8 ± 0.7
 Nuclear ankyrin-repeat proteinAA6149713.7 ± 0.64.3 ± 0.74.1 ± 0.9
 RIKEN cDNA 5730469M10AI85009022.0 ± 5.830.5 ± 9.127.0 ± 6.5
 RIKEN cDNA 1110034C02AI8371041.5 ± 0.11.6 ± 0.11.6 ± 0.03
 IMAGE cDNA 4988271AV3732948.0 ± 2.510.6 ± 1.69.2 ± 1.1
 RIKEN cDNA 5730493B19AW12241312.7 ± 0.319.0 ± 4.115.7 ± 0.9
 Peptidoglycan recognition proteinAV09201413.4 ± 1.518.3 ± 3.014.5 ± 2.1
 Inhibin beta-BX6962013.6 ± 3.119.4 ± 4.716.0 ± 1.4
 CEA-related cell adhesion molecule 2AF10116411.9 ± 1.617.8 ± 5.314.2 ± 1.7
 Keratin complex 1–19M361204.4 ± 0.45.5 ± 1.14.8 ± 0.5
 CEA-related cell adhesion molecule 1M7719615.9 ± 2.423.9 ± 5.919.0 ± 3.8
 SRC family-associated phosphoprotein 2AB0144852.7 ± 0.043.2 ± 0.42.9 ± 0.3
 Peptidoglycan recognition proteinAF0764827.7 ± 1.910.4 ± 2.79.0 ± 2.0
 CEA-related cell adhesion molecule 1M7719619.5 ± 3.930.4 ± 8.822.2 ± 2.7
 CEA-related cell adhesion molecule 1X672796.4 ± 0.78.4 ± 1.17.1 ± 1.1
 Spermidine N1-acetyl transferaseL102448.3 ± 0.911.2 ± 0.89.3 ± 0.6
 RIKEN cDNA 0610007O07AI8517622.7 ± 0.13.0 ± 0.32.8 ± 0.1
 Arginase 1U5180579.4 ± 9.8131.9 ± 20.099.6 ± 14.5
 Acetyl-coenzyme A synthetase 2AW1258842.2 ± 0.22.0 ± 0.12.2 ± 0.2
v-erb-b2 homolog 3AI0062283.4 ± 0.43.1 ± 0.63.4 ± 0.4
 Phospholipase D3AF0261242.6 ± 0.22.4 ± 0.22.6 ± 0.2
 RIKEN cDNA 0610031J06AW1229351.9 ± 0.11.8 ± 0.11.8 ± 0.1
 Complement component 1qX588612.1 ± 0.12.0 ± 0.12.0 ± 0.2
 ScotinAW1237542.0 ± 0.12.0 ± 0.22.0 ± 0.2
 CD24a antigenM586613.2 ± 0.13.1 ± 0.13.3 ± 0.3
 Argininosuccinate synthetase 1M316902.7 ± 0.32.7 ± 0.32.8 ± 0.4
 ATPase 6v1a1U138372.1 ± 0.12.1 ± 0.22.2 ± 0.2
 Gelsolin-like actin-capping proteinX545113.6 ± 0.53.7 ± 0.53.7 ± 0.2
 Golgi phosphoprotein 2AW1254464.5 ± 0.54.6 ± 0.54.7 ± 0.1
 Aldolase 1AY005162.3 ± 0.22.3 ± 0.12.4 ± 0.1
 Cathepsin LX060866.4 ± 0.86.3 ± 1.16.9 ± 0.4
 CD14 antigenX133333.0 ± 0.12.8 ± 0.13.1 ± 0.2
 Decay accelerating factor 2L413654.0 ± 0.13.8 ± 0.83.8 ± 0.2
 Actin-related protein 2/3 complex 1BAW2127752.1 ± 0.22.1 ± 0.12.1 ± 0.2
 Protective protein for β-galactosidaseJ052612.0 ± 0.12.0± 0.12.0 ± 0.1
 Elastase 1M273472.7 ± 0.12.5 ± 0.22.6 ± 0.1
 Connexin 26M8144510.6 ± 1.09.8 ± 0.510.4 ± 0.8
 CeruloplasminU4943015.1 ± 2.815.0 ± 5.514.5 ± 2.1
 Cathepsin HU061193.0 ± 0.23.0 ± 0.33.0 ± 0.3
 BasiginY162581.6 ± 0.11.5 ± 0.11.7 ± 0.1
 Peptidylprolyl isomerase C–associatedX678092.2 ± 0.22.2 ± 0.12.4 ± 0.3
 Glutathione reductase 1AI8519832.3 ± 0.22.3 ± 0.12.6 ± 0.3
 START domain–containing 3X824571.5 ± 0.11.4 ± 0.031.5 ± 0.01
 CD68 antigenX682734.6 ± 0.64.2 ± 0.65.0 ± 0.7
 RIKEN cDNA E030027H19AW2117602.7 ± 0.32.7 ± 0.22.9 ± 0.1
 cDNA sequence BC004044AI4617673.1 ± 0.23.4 ± 0.13.8 ± 0.5
 E74-like factor 3AF0162945.1 ± 0.85.9 ± 0.56.5 ± 0.5
 Glutathione S-transferase omega 1AI8431195.0 ± 1.14.6 ± 0.64.1 ± 0.7
 Interferon-stimulated protein 20AW1226774.2 ± 0.14.3 ± 0.73.4 ± 0.4
 ClusterinD140773.6 ± 0.73.9 ± 0.93.4 ± 0.4
 Galectin 3X168347.4 ± 1.38.7 ± 0.76.9 ± 0.4
 Small proline-rich protein 2AbAJ00555951.1 ± 4.078.3 ± 15.744.2 ± 5.2
 Complement component 3bK0278214.8 ± 1.818.8 ± 1.014.8 ± 0.8
 Small proline-rich protein 2CAJ005561220.3± 31.0340.5 ± 37.1214.1 ± 41.1
 Small proline-rich protein 2GAJ0055659.4 ± 0.911.0 ± 0.39.6 ± 0.6
 PromininAF0396633.5 ± 0.53.6 ± 0.63.4 ± 0.3
 LactotransferrinbJ0329888.7 ± 18.499.2 ± 13.976.9 ± 21.8
 Carbonic anhydrase 2M259447.9 ± 0.58.2 ± 0.97.3 ± 0.4
 Complement component factor IU4781036.5 ± 4.438.4 ± 5.632.9 ± 4.2
 Mannosidase 2alphaB1U872402.0 ± 0.22.0 ± 0.11.9 ± 0.1
 Small proline-rich protein 2BAJ00556032.9 ± 3.739.2 ± 1.930.7 ± 5.0
 Small proline-rich protein 2AbAJ005559269.8 ± 23.7329.1 ± 42.959.1 ± 40.8
 RIKEN cDNA 5830413E08AI8499393.3 ± 0.43.3 ± 0.53.0 ± 0.3
 RIKEN cDNA 1110029F20AW1255084.1 ± 0.14.1 ± 0.43.7 ± 0.1
 Annexin A3AJ0016332.7 ± 0.54.2 ± 0.73.2 ± 0.6
 Peptidase 4U510142.0 ± 0.12.9 ± 0.32.3 ± 0.2
 Laminin gamma 2U433276.3 ± 1.317.3 ± 6.810.2 ± 1.0
 Ubiquitin-like 3AW1207251.5 ± 0.11.8 ± 0.11.7 ± 0.03
 Urate oxidaseM2769523.8 ± 9.5143.9 ± 62.943.8 ±17.7
 Amiloride binding protein 1AI1974813.5 ± 1.010.1 ± 0.86.0 ± 1.2
 Keratin complex 1–19AU0405634.5 ± 1.07.2 ± 1.05.6 ± 0.4
 Activated leukocyte cell adhesion moleculeL252743.6 ± 0.85.1 ± 0.94.4 ± 0.5
 CCAAT/enhancer binding protein βM610072.3 ± 0.12.8 ± 0.32.6 ± 0.1
 Peptidyl arginine deiminase, type IAB0138488.6 ± 0.715.8 ± 3.112.0 ± 1.7
 Enolase 1 αAI8413892.5 ± 0.33.2 ± 0.53.0 ± 0.3
p53 apoptosis effector related to Pmp22AI8540292.9 ± 0.34.1 ± 0.83.7 ± 0.5
 β-GlucuronidaseM192791.9 ± 0.12.3 ± 0.22.2 ± 0.1
 Leucine-rich α-2-glycoproteinAW2308919.3 ± 1.117.6 ± 4.114.5 ± 2.6
 Quiescin Q6AW1235563.7 ± 0.25.5 ± 1.24.8 ± 0.7
 GADD45aU009371.9 ± 0.22.6 ± 0.32.3 ± 0.1
 Alkaline phosphatase 2J029809.2 ± 0.422.6 ± 6.215.8 ± 2.0
 Immediate early response 3X676445.5 ± 0.810.8 ± 2.28.9 ± 2.0
 Progressive ankylosisAW0493512.2 ± 0.12.9 ± 0.42.8 ± 0.4
 RAS p21 protein activator 4AA1639606.8 ± 0.914.2 ± 2.512.1 ± 1.7
 Tumor-associated calcium signal transducer 1M761242.1 ± 0.22.7 ± 0.32.6 ± 0.2
 Hydroxysteroid (17-beta) dehydrogenase 11AA8221741.9 ± 0.12.3 ± 0.32.4 ± 0.1
 Platelet-activating factor acetylhydrolase 1ba1U577461.9 ± 0.12.2 ± 0.22.3 ± 0.1
 Branched chain aminotransferase 1U424432.4 ± 0.23.4 ± 0.23.4 ± 0.01
 RIKEN cDNA 2400004E04AI8467201.7 ± 0.12.4 ± 0.22.3 ± 0.2
 Myeloblastosis oncogeneM128482.8 ± 0.45.6 ± 1.15.0 ± 0.2
 K+ conductance calcium-activated channel N4AF0424873.1 ± 0.24.2 ± 0.63.5 ± 0.8
 ATPase 6v1b2AI8430291.7 ± 0.11.8 ± 0.11.8 ± 0.1
 Cystic fibrosis transmembrane regulatorM604933.4 ± 0.54.5 ± 0.83.9 ± 0.3
 RIKEN cDNA 1110008P14AI8398394.3 ± 0.46.0 ± 1.05.1 ± 0.2
 Fused toesZ679632.6 ± 0.23.2 ± 0.32.8 ± 0.1
 Solute carrier family 39a8AW1243403.5 ± 0.54.5 ± 0.73.8 ± 0.3
 Cytochrome b-561AI8465172.2 ± 0.22.5 ± 0.22.3 ± 0.2
 Secreted phosphoprotein 1X1398630.2 ± 3.347.4 ± 7.431.1 ± 2.7
 Ion transport regulator Fxyd3X930385.3 ± 0.46.8 ± 1.15.5 ± 0.6
 Janus kinase 3L401722.1 ± 0.22.5 ± 0.22.2 ± 0.2
 Cytochrome b-245alphaAW0461242.9 ± 0.43.6 ± 0.42.9 ± 0.2
 RIKEN cDNA A430096B05AI4659656.3 ± 1.08.6 ± 0.036.3 ± 0.6
 Small proline-rich protein 2JAJ0055688.6 ± 2.113.8 ± 3.28.5 ± 0.7
 Cathepsin BM652702.2 ± 0.12.6 ± 0.22.2 ± 0.1
 RIKEN cDNA 1600025H15AI8427342.2 ± 0.12.7 ± 0.32.2 ± 0.2
 c-fos oncogenebV007273.2 ± 0.44.7 ± 0.93.7 ± 0.8
 Guanine nucleotide binding protein γ5AI8439371.6 ± 0.11.8 ± 0.11.6 ± 0.03
 Serine palmitoyltransferase lc2U274551.6 ± 0.12.0 ± 0.21.7 ± 0.1
 Cystatin BU598071.5 ± 0.11.7 ± 0.11.5 ± 0.02
 Villin 2X606711.9 ± 0.22.4 ± 0.31.9 ± 01
 RIKEN cDNA 0610010O12AI8490111.9 ± 0.12.5 ± 0.31.9 ± 0.03
 Matrix metalloproteinase 7L3624447.8 ± 18.6208.6 ± 83.348.2 ± 11.9
 RIKEN cDNA 4930422J18AV3763122.0 ± 0.32.9 ± 0.32.0 ± 0.2
 RIKEN cDNA 1700017B05AW0493601.6 ± 0.12.0 ± 0.11.6 ± 0.1
 Galactosidase beta 1M577341.8 ± 0.12.0 ± 0.11.7 ± 0.1
 Cathepsin CU746832.6 ± 0.13.3 ± 0.22.3 ± 0.3
 Interferon-stimulated protein 15X566023.6 ± 0.62.0 ± 0.23.8 ± 0.7
 MAP kinase–interacting kinase 2Y110921.8 ± 0.11.4 ± 0.11.9 ± 0.1
 Glutathione S-transferase theta 2X980563.5 ± 0.42.9 ± 0.43.6 ± 0.2
 Gene nameaccession no.E2GENDES
 Homeobox B6M184011.5 ± 0.021.5 ± 0.11.6 ± 0.03
 Procollagen VIalpha 3AF0647492.1 ± 0.21.9 ± 0.22.1 ± 0.02
 Interferon regulatory factor 7U7303711.7 ± 0.98.1 ± 0.712.6 ± 1.5
 Scavenger receptor class B2AB0085532.7 ± 0.12.4 ± 0.32.6 ± 0.2
 Polyimmunoglobulin receptorAB0014898.1 ± 0.76.2 ± 0.87.9 ± 1.0
 Proteasome subunit β10Y108752.1 ± 0.041.9 ± 0.042.1 ± 0.1
 RIKEN cDNA 0610010E05AV3127362.9 ± 0.32.5 ± 0.22.7 ± 0.4
 RIKEN cDNA 0610010E05AI8548393.7 ± 0.53.0 ± 0.13.4 ± 0.3
 Xanthine dehydrogenaseX7512912.2 ± 2.28.9 ± 1.210.1 ± 1.5
 PromininAF0396633.5 ± 0.22.9 ± 0.23.1 ± 0.3
 Interferon-induced protein IFIT1U4308417.5 ± 2.99.9 ± 1.514.0 ± 2.1
 Interferon-induced protein IFIT3U430868.1 ± 2.34.7 ± 0.26.7 ± 0.6
 Proteasome subunit β8U220332.0 ± 0.11.8 ± 0.22.1 ± 0.1
 RIKEN cDNA 1600023A02AW1213361.9 ± 0.11.7 ± 0.12.0 ± 0.04
 Small proline-rich protein 1AAF05715611.1 ± 3.78.6 ± 0.814.7 ± 0.8
 MAP kinase-interacting kinase 2AI8457322.0 ± 0.11.7 ± 0.12.0 ± 0.2
 Lymphocyte antigen 6 complex, locus EU477372.0 ± 0.011.7 ± 0.12.0 ± 0.1
 Guanylate nucleotide binding protein 2AJ0079703.0 ± 0.12.0 ± 0.22.6 ± 0.1
 Peptidyl arginine deiminase, type IIbD165801.9 ± 0.39.1 ± 0.35.2 ± 1.5
Down-regulated genes
 Solute carrier family 29a1AI8382742.0 ± 0.22.9 ± 0.32.5 ± 0.1
 Lymphocyte specific 1D496911.6 ± 0.12.3 ± 0.21.8 ± 0.1
 Claudin 5U827582.0 ± 0.22.8 ± 0.12.7 ± 0.5
 Potassium channel td12AI8420651.6 ± 0.042.0 ± 0.042.1 ± 0.1
 Zinc finger homeobox 1aD764321.5 ± 0.11.7 ± 0.11.8 ± 0.01
 Monoamine oxidase AAI8480452.3 ± 0.22.7 ± 0.22.5 ± 0.4
 Histidine decarboxylaseX574374.8 ± 0.87.1 ± 0.65.4 ± 0.8
 α-2 Adrenergic receptorM975163.0 ± 0.34.2 ± 1.13.6 ± 0.3
 Transcription factor 21AF0357171.8 ± 0.22.2 ± 0.22.0 ± 0.1
 Homeobox D8X565612.2 ± 0.12.8 ± 0.032.5 ± 0.2
 Carboxypeptidase X2AF0176394.1 ± 0.75.2 ± 1.04.2 ± 0.2
 RIKEN cDNA A230106A15AI8488413.8 ± 0.24.7 ± 0.54.2 ± 0.7
 Reduced expression 3AA7900083.1 ± 0.23.5 ± 0.33.2 ± 0.4
 TGF-β binding protein 4AA8388681.8 ± 0.12.1 ± 0.11.8 ± 0.2
 KeratoepithelinbL1993211.5 ± 2.512.6 ± 0.99.7 ± 3.6
 GLI-Kruppel family member GLIAB02592211.6 ± 0.812.2 ± 2.68.2 ± 2.6

Abbreviations: CEA, carcinoembrionary antigen; SRC, steroid receptor coactivator; TGF, transforming growth factor.

Gene names (derived from the NetAffx database; Liu et al. 2003), GenBank accession numbers (GenBank 2004), and mean (± SD) fold induction/repression of gene expression are shown in the same order as the gene cluster in Figure 3C.

Genes mentioned in the text.