Skip to main content

Identification of genes differentially expressed between benign and osteopontin transformed rat mammary epithelial cells



Osteopontin is a secreted, integrin-binding and phosphorylated acidic glycoprotein which has an important role in tumor progression.


In this study, we have utilized suppressive subtractive hybridization (SSH) to evaluate OPN regulated gene expression, using the Rama 37 benign non-invasive rat mammary cell line and a subclone, Rama 37-OPN. Rama 37-OPN was produced by stably transfecting Rama 37 with an OPN expression vector and it demonstrates increased malignant properties in vitro. Sequence and expression array analysis of the respective cDNA libraries of over 1600 subtracted cDNA fragments revealed 982 ESTs, 45 novel sequences and 659 known genes. The known up-regulated genes in the Rama 37-OPN library code for proteins with a variety of functions including those involved in metabolism, cell adhesion and migration, signal transduction and in apoptosis. Four of the most differentially expressed genes between the benign and in vitro malignant rat mammary cell lines are tumor protein translationally controlled I (TPTI), aryl hydrocarbon receptor nuclear translocator (ARNT), ataxia telangiectasia mutated (ATM) and RAN GTPase (RAN). The largest difference (ca 10,000 fold) between the less aggressively (MCF-7, ZR-75) and more aggressively malignant (MDA MB 231, MDA MB 435S) human breast cancer cell lines is that due to RAN, the next is that due to osteopontin itself.


The results suggest that enhanced properties associated with the malignant state in vitro induced by osteopontin may be due to, in part, overexpression of RAN GTPase and these biological results are the subject of a subsequent publication [1].


Metastasis is the major cause of treatment failure in breast cancer patients [1]. The extracellular matrix glycophosphoprotein osteopontin (OPN) is normally secreted by osteoblasts and is utilized as an extracellular adhesion molecule [1]. Osteopontin has also been associated with certain aspects of malignant transformation [2] by enhancing malignant cell attachment contributing to anchorage-independent growth and the migration of tumor cells [3, 4]. Moreover, transfection of benign, nonmetastatic rat mammary cells with the cDNA for OPN in an expression vector endows the transfectants with the ability to overproduce OPN in vitro and to metastasize in vivo [5]. Furthermore, we and others have shown that OPN overexpression is associated with poor prognosis in human primary breast cancer [6, 7]. Recently, OPN has been shown to be the single most powerful prognostic factor in a multivariate analysis against outcome, in a large prospective study of breast cancer patients [8]. Circulating plasma levels of OPN are also higher in metastatic breast cancer patients [9]. However, the precise molecular mechanisms of how OPN regulates metastasis remain unclear.

To obtain a better understanding of this phenomenon and, in particular, the downstream target genes in the OPN signaling pathway, the technique of suppression subtractive hybridization (SSH) has been employed. SSH is an efficient method that uses widely available facilities to identify sequences of known and unknown genes [10]. SSH has been used in the present study to determine differential gene expression between the benign rat mammary cell line Rama 37 (R37) and R37 cells stably transfected with an expression vector for OPN, termed R37-OPN cells.

Using the SSH method combined with reverse Northern hybridization, we have identified genes that are differentially expressed between the benign non-invasive rat mammary cell line and the invasive and malignant metastatic Rama 37-OPN. Some of the differentially expressed genes were then tested further by Real Time PCR for the relative level of their expressed mRNAs in a series of cell lines established from human breast cancer and the mRNA species which changes the most has been identified as RAN GTPase. The biological relevance of these changes are the subject of a subsequent paper [1].


Stable transfection of osteopontin gene

To ascertain if OPN expression was related to invasion and other properties associated with the malignant state in vitro, we raised various stable cell lines from R37 cells. These were stably transfected by empty vector pBK-CMV (R37-pBK-CMV) or by the constitutively-active expression vector OPN-pBK-CMV (R37-OPN cells), as described in Methods. Individual clones of the transfectants were combined for subsequent analysis to generate pooled cell lines. Immunoblot analysis using a monoclonal (MAb) antibody to OPN, which recognizes both human and rat OPN (Materials and Methods), showed that the OPN protein was expressed at a low level in R37 and R37-pBK-CMV cells (Fig. 1A). OPN protein expression was increased 10 fold in R37-OPN compared to R37 and R37-pBK-CMV cell lines (Fig. 1A). In R37, R37-pBK-CMV and R37-OPN cell lines, the MAb to OPN recognized a protein of Mr 65,000 (Fig. 1A, Lanes 1–3), consistent with the size of OPN from the original rat cell lines [8, 11]. The increase in OPN protein in the R37-OPN pooled cell line suggests that the OPN-pBK-CMV vector consistently overexpresses OPN, the empty vector pBK-CMV having no effect on OPN expression in R37 cells.

Figure 1
figure 1

The biological effect of introduction of OPN into benign R37 cells. A Immunoblot showing OPN protein levels in R37, R37-pBK-CMV and R37-OPN cells. Cell lysates were diluted and 20 μg loaded onto a SDS 10% (w/w) polyacrylamide gel as follows: lane 1 R37; lane 2; R37-pBK-CMV; lane 3 R37-OPN. Specific proteins were detected using antibodies to OPN and β-actin. Bands were quantified using densitometric analysis and normalized against β-actin. The average fold increase for three different experiments are: lane 1 = 1, lane 2 = 1 ± 0.2 and lane 3 = 10 ± 1.7. B Ability of transfected cell lines to adhere to a fibronectin-treated surface was assessed over a 30 min period and the number of adherent cells quantified. Results of the mean ± standard error from three independent experiments are shown. C Soft agar assay was carried out to assess the ability of stably transfected cell lines to grow in an anchorage independent environment. The colony number was assessed after 5 days. Results of the mean ± standard error from three independent experiments are shown. D R37, R37-pBK-CMV and R37-OPN were plated on ECM-coated filters (500 μg/ml) in Boyden chambers. The number of cells that migrated through the filter after 48 hrs was determined by staining and scanning using a digital imaging system (Methods). Results of the mean ± standard error from three independent experiments are shown.

Effect of OPN on cellular adhesion, anchorage-independent growth and invasion

Adhesion of cells to fibronectin-coated surfaces was assayed using a dye-based system. R37-OPN cells showed a 9.2 and 8 fold increase in cell adhesion to fibronectin-coated dishes, in comparison with R37 and R37-pBK-CMV cells, respectively (Student's t-test, p < 0.01) (Fig. 1B). Colony formation was assayed in soft agar, R37-OPN cells induced a 1.8 and 2.3 fold increase in colony number per plate compared to R37 and R37-pBK-CMV cells, respectively (p < 0.01) (Fig. 1C). The ability of cells to migrate through a reconstituted three dimensional collagen gel (Matrigel) and appear on the underside of a polycarbonate membrane was tested as an assay for cell invasion. The cells on the underside of the membrane were stained, scanned and counted using a digital imaging system described in Methods [12]. Migration of R37-OPN transformants was 913 and 1006 fold greater than the parental R37 and R37-pBK-CMV cells, respectively (p ≤ 0.002) (Fig. 1D). These results suggest that high levels of OPN induce cell adhesion, anchorage-independent growth and invasion in vitro, properties consistent with the malignant metastatic state in vivo [5, 13].

cDNA library construction by suppression subtractive hybridization

A cDNA library was constructed from the two cell lines. In the forward SSH library, the benign noninvasive R37 was used as the driver and the malignant invasive R37-OPN cell line as the tester. In the reverse suppression subtractive hybridization library, the benign, noninvasive R37 was used as the tester and the malignant invasive R37-OPN cell line as the driver. The forward and reverse subtracted libraries represent genes that are preferentially up and down-regulated in relation to OPN-mediated transformation in mammary cells. To evaluate the efficiency of cDNA subtraction, we compared the transcript levels of the housekeeping gene glyceraldehyde-3-phosphate dehydrogenase (GAPDH) by RT-PCR in subtracted and unsubtracted cDNA libraries from R37 and R37-OPN cells, respectively. Detection of GAPDH sequences for both subtractions required 26 PCR cycles with subtracted cDNA as template, whereas only 10 cycles were required to amplify GAPDH from control cDNAs. Thus the commonly expressed gene GAPDH was significantly depleted from the subtracted cDNA libraries. Overall, 90% of the randomly-picked cloned cDNAs yielded sequence information. We have obtained 291 sequences (comprising 108 different known cDNAs (see Additional file 1), 178 expressed-sequence-tags (ESTs) (see Additional file 2) and 5 unmatched sequences) and 1394 sequences (comprising 550 different known cDNAs (see Additional file 3), 804 expressed-sequence-tags (ESTs) (see Additional file 4) and 40 unmatched sequences) from R37 and R37-OPN subtracted libraries, respectively. In total, 327 subtractive cDNA clones (303 in the R37-OPN and 24 in the R37), after excluding redundant and false-positives, were obtained by performing a BLAST (Basic Local Alignment Search Tool) search for comparison with NCBI RefSeq, GenBank, and dbEST. The known and novel genes in R37 (see Additional files 1 &2) and R37-OPN (see Additional files 3 &4) libraries are listed according to the function of their proteins. Sequence analysis of the colonies from R37-OPN and R37 libraries yielded a complex of previously identified cancer-associated genes, tumor suppressor genes as well as a set of previously uncharacterized genes with no level of redundancy. These data are consistent with a significant enrichment for invasion-associated and suppressor genes from the R37-OPN and R37 libraries, respectively.

Differential screening of the subtracted libraries

The relative levels of mRNAs corresponding to the sequenced cloned cDNAs, isolated from the subtracted benign, non malignant and invasive, malignant libraries, were estimated in R37 and R37-OPN cells by reverse Northern hybridization, using cDNA produced from mRNA from either the R37 or R37-OPN cells as probes. The hybridization results were normalized using cDNAs corresponding to mRNAs for GAPDH, which showed similar expression between the R37 and R37-OPN cell lines. Using an expression ratio of over three-fold as cut-off, 18 of 24 cDNA clones and 83 of the 303 cDNA clones, examined by reverse Northern screening were identified in the benign, non-invasive and malignant, invasive subtracted libraries, respectively (see Additional files 1 &2 and 3 &4). Eighteen % and 38% cDNAs were differentially expressed by over 15-fold in the benign and malignant breast tumor cell lines, respectively. Amongst the cDNAs expressed at a higher level in the R37-OPN cells than in the R37 cells were previously characterized breast cancer-associated genes such as TPTI [14], ARNT [15], CSFIR [16], MDM2 [17], CD44 [18], Cxcr4 [19], RAN GTPase [20], cytokeratin 20 (CK20) [21], Ki67 [22], with fold increases of 8, 8, 9, 9, 11, 23, 25, 32, and 45, respectively. Amongst the cDNAs expressed at a lower level in R37-OPN cells were previously characterized cancer suppressor genes PTEN [23], ATM [24] and BRCA1 associated protein 1 [24] with decreases of 19, 23 and 23 fold, respectively. These results are consistent with changed levels of expression of molecules implicated in breast and other cancers.

Quantitative Real Time PCR

Four of the highest differentially expressed genes that were also associated with invasion and/or malignancy were chosen from the total number of 1685 for validation by quantitative real-time PCR analysis (QPCR) (see Additional file 5) using the relatively non-invasive MCF-7 and the highly invasive MDA-MB-231 and MDA-MB-435S human breast cancer cell lines [25]. The four genes encode for tumor protein translationally-controlled (TPTI), aryl hydrocarbon receptor nuclear translocator (ARNT), ataxia telangiectasia mutated (ATM) and RAN GTPase (RAN). MCF-7 cell: other cell ratios were calculated using the comparative threshold cycle (Ct) method [26] after normalization to a control housekeeping gene for ribosomal RNA S18. The highly invasive malignant cell lines MDA-MB-231 and MDA-MB-435S showed a 269 and 159 fold increase in TPTI expression, respectively, in comparison with the relatively non-invasive malignant cell line MCF-7. MDA-MB-231 and MDA-MB-435S cells showed a 16.6 and 4.1 fold increase in ARNT expression, respectively, in comparison with MCF-7 cells. ATM was undetectable in both MCF-7 and MDA-MB-435S, but a small amount was detected in MDA-MB-231 cells (see Additional file 5). However, the most differentially expressed gene of the four was RAN GTPase. Thus the invasive cell lines MDA-MD-435s and MDA-MB-231 showed a 13191 and 765 fold increase, respectively, in RAN expression compared to MCF-7 cells and they also showed a 9785 and 60 fold increase in levels of OPN (see Additional file 5). The relatively non-invasive breast cancer cell line ZR-75 showed almost identical levels of low expression of RAN and OPN to those of the MCF-7 cell line (see Additional file 5).


These results are not a simple artefact of a single clone of cells, since they have been obtained with pools of single cell clones of transfectants. R37 cells thus provide a robust system for the study of OPN-induced changes in the parental R37 cells that lead to the invasive, malignant phenotype in vitro and, in a parallel system, to the metastatic state in vivo [5]. Using SSH technology, we have now identified potential downstream effectors of the OPN-induced signaling network that may lead to invasion and ultimately metastasis. Here we report the recovery of gene fragments representing differentially expressed mRNAs between benign, noninvasive R37 [11] and malignant, invasive R37-OPN cells [11] from two cDNA libraries established after SSH, and compare their sequences with those of known genes (see Additional files 1 &2, 3 &4). The SSH procedures used to establish differences in gene expression between the two cell types have permitted the isolation of genes expressed in high and low-abundance classes. It also leads directly to the production of cloned fragments of expressed genes without the necessity to clone subsequently genes of interest.


Cell culture and production of stable transformant cell lines

In vitro tests for malignancy

Assays for cell adhesion, colony formation and invasion through Matrigel in Boyden chambers were carried out as previously described ([13]; see Additional file 6).

Synthesis of SSH cDNA libraries

Two subtracted cDNA libraries, from R37 and R37-OPN cell lines, were synthesized using the PCR-Select™ cDNA subtraction kit (CLONTECH) (see Additional file 6).

Cloning and sequence analysis of OPN-target genes

The forward and reverse subtracted cDNAs were cloned into pCR2.1-TOPO vectors (Invitrogen) and transformed into competent TOPO 10 cells (Invitrogen) (see Additional file 6).

Expression array screening and analysis

A total of 327 combined cDNA inserts from forward subtracted and reverse subtracted libraries were PCR amplified using NP1R and NP2R primers as previously described [27] (see Additional file 6).

Quantitative Real Time RT-PCR (QPCR)

QPCR was used as an independent method to probe the association of identified differentially expressed genes with that of OPN in different human breast cancer cell lines (see Additional file 6).

Statistical treatment of results

All biological experiments were performed at least 3 times. The mean and standard error were calculated and p values less than 0.05 were considered significant as calculated using the Student's t-test.



osteopontin, MAb: monoclonal antibody


rat mammary

and SDS:

sodium dodecyl sulfate.


  1. Kurisetty VV, Johnston PG, Johnston N, Erwin P, Crowe P, Fernig DG, Campbell FC, Anderson IP, Rudland PS, El-Tanani MK: RAN GTPase is an effector of the invasive/metastatic phenotype induced by osteopontin. Oncogene. 2008, 27 (57): 7139-7149. 10.1038/onc.2008.325.

    Article  CAS  PubMed  Google Scholar 

  2. Behrend EI, Craig AM, Wilson SM, Denhardt DT, Chambers AF: Reduced malignancy of ras-transformed NIH 3T3 cells expressing antisense osteopontin RNA. Cancer Res. 1994, 54 (3): 832-837.

    CAS  PubMed  Google Scholar 

  3. Euer N, Schwirzke M, Evtimova V, Burtscher H, Jarsch M, Tarin D, Weidle UH: Identification of genes associated with metastasis of mammary carcinoma in metastatic versus non-metastatic cell lines. Anticancer Res. 2002, 22 (2A): 733-740.

    CAS  PubMed  Google Scholar 

  4. Tuck AB, Hota C, Chambers AF: Osteopontin(OPN)-induced increase in human mammary epithelial cell invasiveness is urokinase (uPA)-dependent. Breast Cancer Res Treat. 2001, 70 (3): 197-204. 10.1023/A:1013095329825.

    Article  CAS  PubMed  Google Scholar 

  5. Oates AJ, Barraclough R, Rudland PS: The identification of osteopontin as a metastasis-related gene product in a rodent mammary tumour model. Oncogene. 1996, 13 (1): 97-104.

    CAS  PubMed  Google Scholar 

  6. Rudland PS, Platt-Higgins A, Renshaw C, West CR, Winstanley JH, Robertson L, Barraclough R: Prognostic significance of the metastasis-inducing protein S100A4 (p9Ka) in human breast cancer. Cancer Res. 2000, 60 (6): 1595-1603.

    CAS  PubMed  Google Scholar 

  7. Tuck AB, O'Malley FP, Singhal H, Harris JF, Tonkin KS, Kerkvliet N, Saad Z, Doig GS, Chambers AF: Osteopontin expression in a group of lymph node negative breast cancer patients. Int J Cancer. 1998, 79 (5): 502-508. 10.1002/(SICI)1097-0215(19981023)79:5<502::AID-IJC10>3.0.CO;2-3.

    Article  CAS  PubMed  Google Scholar 

  8. Rudland PS, Platt-Higgins A, El-Tanani M, De Silva Rudland S, Barraclough R, Winstanley JH, Howitt R, West CR: Prognostic significance of the metastasis-associated protein osteopontin in human breast cancer. Cancer Res. 2002, 62 (12): 3417-3427.

    CAS  PubMed  Google Scholar 

  9. Singhal H, Bautista DS, Tonkin KS, O'Malley FP, Tuck AB, Chambers AF, Harris JF: Elevated plasma osteopontin in metastatic breast cancer associated with increased tumor burden and decreased survival. Clin Cancer Res. 1997, 3 (4): 605-611.

    CAS  PubMed  Google Scholar 

  10. Diatchenko L, Lau YF, Campbell AP, Chenchik A, Moqadam F, Huang B, Lukyanov S, Lukyanov K, Gurskaya N, Sverdlov ED, Siebert PD: Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries. Proc Natl Acad Sci USA. 1996, 93 (12): 6025-6030. 10.1073/pnas.93.12.6025.

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  11. El-Tanani M, Barraclough R, Wilkinson MC, Rudland PS: Metastasis-inducing DNA regulates the expression of the osteopontin gene by binding the transcription factor Tcf-4. Cancer Res. 2001, 61 (14): 5619-5629.

    CAS  PubMed  Google Scholar 

  12. Fenrick R, Wang L, Nip J, Amann JM, Rooney RJ, Walker-Daniels J, Crawford HC, Hulboy DL, Kinch MS, Matrisian LM, Hiebert SW: TEL, a putative tumor suppressor, modulates cell growth and cell morphology of ras-transformed cells while repressing the transcription of stromelysin-1. Mol Cell Biol. 2000, 20 (16): 5828-5839. 10.1128/MCB.20.16.5828-5839.2000.

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  13. El-Tanani MK, Campbell FC, Crowe P, Erwin P, Harkin DP, Pharoah P, Ponder B, Rudland PS: BRCA1 Suppresses Osteopontin-mediated Breast Cancer. J Biol Chem. 2006, 281 (36): 26587-26601. 10.1074/jbc.M604403200.

    Article  CAS  PubMed  Google Scholar 

  14. Tuynder M, Susini L, Prieur S, Besse S, Fiucci G, Amson R, Telerman A: Biological models and genes of tumor reversion: cellular reprogramming through tpt1/TCTP and SIAH-1. Proc Natl Acad Sci USA. 2002, 99 (23): 14976-14981. 10.1073/pnas.222470799.

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  15. Koga F, Kageyama Y, Kawakami S, Fujii Y, Hyochi N, Ando N, Takizawa T, Saito K, Iwai A, Masuda H, Kihara K: Prognostic significance of endothelial Per-Arnt-sim domain protein 1/hypoxia-inducible factor-2alpha expression in a subset of tumor associated macrophages in invasive bladder cancer. J Urol. 2004, 171 (3): 1080-1084. 10.1097/01.ju.0000110541.62972.08.

    Article  CAS  PubMed  Google Scholar 

  16. Kirma N, Luthra R, Jones J, Liu YG, Nair HB, Mandava U, Tekmal RR: Overexpression of the colony-stimulating factor (CSF-1) and/or its receptor c-fms in mammary glands of transgenic mice results in hyperplasia and tumor formation. Cancer Res. 2004, 64 (12): 4162-4170. 10.1158/0008-5472.CAN-03-2971.

    Article  CAS  PubMed  Google Scholar 

  17. Murray SA, Yang S, Demicco E, Ying H, Sherr DH, Hafer LJ, Rogers AE, Sonenshein GE, Xiao ZX: Increased expression of MDM2, cyclin D1, and p27Kip1 in carcinogen-induced rat mammary tumors. J Cell Biochem. 2005, 95 (5): 875-884. 10.1002/jcb.20414.

    Article  CAS  PubMed  Google Scholar 

  18. Udabage L, Brownlee GR, Nilsson SK, Brown TJ: The over-expression of HAS2, Hyal-2 and CD44 is implicated in the invasiveness of breast cancer. Exp Cell Res. 2005, 310 (1): 205-217. 10.1016/j.yexcr.2005.07.026.

    Article  CAS  PubMed  Google Scholar 

  19. Su YC, Wu MT, Huang CJ, Hou MF, Yang SF, Chai CY, Kang H, Watkins G, Douglas-Jones A, Mansel RE, Jiang WG: Expression of CXCR4 is associated with axillary lymph node status in patients with early breast cancer. Breast. 2005, 14 (5): 360-367. 10.1016/j.breast.2004.12.007.

    Article  Google Scholar 

  20. Papaconstantinou AD, Shanmugam I, Shan L, Schroeder IS, Qiu C, Yu M, Snyderwine EG: Gene expression profiling in the mammary gland of rats treated with 7,12-dimethylbenz[a]anthracene. Int J Cancer. 2005, 118 (1): 17-24. 10.1002/ijc.21247.

    Article  Google Scholar 

  21. Dubecz S, Csuka O, Torok K, Vasas N, Peley G, Doleschal Z, Sulyok Z, Lang I, Koves I: Clinical significance of bone marrow micrometastases of breast tumors. Magy Seb. 2003, 56 (3–4): 108-112.

    PubMed  Google Scholar 

  22. Crusius PS, Forcelini CM, Mallmann AB, Silveira DA, Lersch E, Seibert CA, Crusius MU, Carazzo CA, Crusius CU, Goellner E: Metastatic prolactinoma: case report with immunohistochemical assessment for p53 and Ki-67 antigens. Arq Neuropsiquiatr. 2005, 63 (3b): 864-869.

    Article  PubMed  Google Scholar 

  23. Freeman DJ, Li AG, Wei G, Li HH, Kertesz N, Lesche R, Whale AD, Martinez-Diaz H, Rozengurt N, Cardiff RD, Liu X, Wu H: PTEN tumor suppressor regulates p53 protein levels and activity through phosphatase-dependent and -independent mechanisms. Cancer Cell. 2003, 3 (2): 117-130. 10.1016/S1535-6108(03)00021-7.

    Article  CAS  PubMed  Google Scholar 

  24. Buchholz TA, Weil MM, Story MD, Strom EA, Brock WA, McNeese MD: Tumor suppressor genes and breast cancer. Radiat Oncol Investig. 1999, 7 (2): 55-65. 10.1002/(SICI)1520-6823(1999)7:2<55::AID-ROI1>3.0.CO;2-#.

    Article  CAS  PubMed  Google Scholar 

  25. Nam JS, Ino Y, Kanai Y, Sakamoto M, Hirohashi S: 5-aza-2'-deoxycytidine restores the E-cadherin system in E-cadherin-silenced cancer cells and reduces cancer metastasis. Clin Exp Metastasis. 2004, 21 (1): 49-56. 10.1023/B:CLIN.0000017180.19881.c1.

    Article  CAS  PubMed  Google Scholar 

  26. Ponchel F, Toomes C, Bransfield K, Leong FT, Douglas SH, Field SL, Bell SM, Combaret V, Puisieux A, Mighell AJ, Robinson PA, Inglehearn CF, Isaacs JD, Markham AF: Real-time PCR based on SYBR-Green I fluorescence: an alternative to the TaqMan assay for a relative quantification of gene rearrangements, gene amplifications and micro gene deletions. BMC Biotechnol. 2003, 3: 18-10.1186/1472-6750-3-18.

    Article  PubMed Central  PubMed  Google Scholar 

  27. Liu D, Rudland PS, Sibson DR, Barraclough R: Identification of mRNAs differentially-expressed between benign and malignant breast tumour cells. Br J Cancer. 2002, 87 (4): 423-431. 10.1038/sj.bjc.6600456.

    Article  PubMed Central  CAS  PubMed  Google Scholar 

Download references


The authors' research on OPN has received grant support from sources that include the Action Cancer, Queen's University Belfast (R&D), RRG-Northern Ireland and Cancer Research-UK.

Author information

Authors and Affiliations


Corresponding author

Correspondence to Mohamed K El-Tanani.

Additional information

Authors' contributions

VVK: Carried out the laboratory molecular biology studies and sequence alignment; PGJ: Participated in data analysis and revising the manuscript; PSR: Provided the parental Rama 37 and revising the manuscript and MKE: conceived, coordinated and designed the study, led the research, data analysis and wrote the entire manuscript. All the authors read and approved the final manuscript.

Electronic supplementary material


Additional File 1: Table 1A. Known Genes from R37-OPN Subtracted Library. Species name and accession number are listed according to the match in BLAST analysis (XLS 215 KB)

Additional File 2: Table 1B. ESTs from R37-OPN Subtracted Library. (XLS 2 MB)

Additional File 3: Table 2A Known Genes from R37 Subtracted Library. (XLS 82 KB)

Additional File 4: Table 2B. ESTs from R37 Subtracted Library. (XLS 50 KB)


Additional File 5: Table 3. Quantitative RT-PCR for 3 breast cancer cell lines. The differential expression of the tumor protein, translationally-controlled 1 (TPT1), aryl hydrocarbon receptor nuclear translocator (ARNT), ataxia telangiectasia mutated (ATM), and RAN GTPase (RAN) genes versus the housekeeping S18 ribosomal gene was calculated for each cell line using the expression: &#916Ct = Cttarget gene-CtS18. Next, MCF7 non-invasive cells:other cell ratios were calculated from the &#916Ct values as follows: 2-(&#916Ct tumor cells-&#916Ct MCF-7). ND-not detectable. (XLS 41 KB)

Additional File 6: Details Methods. (PDF 99 KB)

Authors’ original submitted files for images

Below are the links to the authors’ original submitted files for images.

Authors’ original file for figure 1

Rights and permissions

This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Reprints and permissions

About this article

Cite this article

Kurisetty, V.V., Johnston, P.G., Rudland, P.S. et al. Identification of genes differentially expressed between benign and osteopontin transformed rat mammary epithelial cells. BMC Res Notes 2, 15 (2009).

Download citation

  • Received:

  • Accepted:

  • Published:

  • DOI: