Gene expression profile of papillary thyroid cancer: Sources of variability and diagnostic implications

Cancer Research

Volumn 65, Issue 4, 2005, Pages 1587-1597

  Jarza̧b, Barbara ^a   Wiench, Małgorzata ^a   Fujarewicz, Krzysztof ^b   Simek, Krzysztof ^b   Jarza̧b, Michał ^a   Oczko Wojciechowska, Małgorzata ^a   Włoch, Jan ^a   Czarniecka, Agnieszka ^a   Chmielik, Ewa ^a   Lange, Dariusz ^a   Pawlaczek, Agnieszka ^a   Szpak, Sylwia ^a   Gubała, Elzbieta ^a   Świerniak, Andrzej ^b  

^a INSTITUTE OF ONCOLOGY   (Poland)

^b SILESIAN UNIVERSITY OF TECHNOLOGY   (Poland)

Author keywords

[No Author keywords available]

Indexed keywords

ADOLESCENT; ADULT; AGED; ARTICLE; CDH3 GENE; CHILD; CLINICAL ARTICLE; CONTROLLED STUDY; DPP4 GENE; EVA1 GENE; FEMALE; GENE; GENE EXPRESSION PROFILING; GJB3 GENE; HBB GENE; HUMAN; HUMAN TISSUE; IGSF1 GENE; IL13RA1 GENE; KIAA0830 GENE; LGALS3 GENE; LRP4 GENE; MALE; MET GENE; MKRN2 GENE; MRC2 GENE; MTMR4 GENE; P4HA2 GENE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; QPCT GENE; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RXRG GENE; SERPINA 1 GENE; SLC34A2 GENE; SPUVE GENE; ST14 GENE; THYROID PAPILLARY CARCINOMA; TMPRSS4 GENE;

ADOLESCENT; ADULT; AGED; CARCINOMA, PAPILLARY; CHILD; CHILD, PRESCHOOL; FEMALE; GENE EXPRESSION PROFILING; HUMANS; MALE; MIDDLE AGED; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REPRODUCIBILITY OF RESULTS; THYROID NEOPLASMS;

EID: 13944273001     PISSN: 00085472     EISSN: None     Source Type: Journal    
DOI: 10.1158/0008-5472.CAN-04-3078     Document Type: Article

References (48)

1. Eszlinger M, Krohn K, Paschke R. Complementary DNA expression array analysis suggests a lower expression of signal transduction proteins and receptors in cold and hot thyroid nodules. J Clin Endocrinol Metab 2001;86:4834-42.
2. Huang Y, Prasad M, Lemon WJ, et al. Gene expression in papillary thyroid carcinoma reveals highly consistent profiles. Proc Natl Acad Sci U S A 2001;98:15044-9.
3. Prasad ML, Pellegata NS, Kloos RT, Barbacioru C, Huang Y, de la Chapelle A. CITED1 protein expression suggests papillary thyroid carcinoma in high throughput tissue microarray-based study. Thyroid 2004;14: 169-75.
4. Takano T, Hasegawa Y, Matsuzuka F, et al. Gene expression profiles in thyroid carcinomas. Br J Cancer 2000;83:1495-502.
5. Baris O, Savagner F, Nasser V, et al. Transcriptional profiling reveals coordinated up-regulation of oxidative metabolism genes in thyroid oncocytic tumors. J Clin Endocrinol Metab 2004;89:994-1005.
6. Barden CB, Shister KW, Zhu B, et al. Classification of follicular thyroid tumors by molecular signature: results of gene profiling. Clin Cancer Res 2003;9:1792-800.
7. Mazzanti C, Zeiger MA, Costourous N, et al. Using gene expression profiling to differentiate benign versus malignant thyroid tumors. Cancer Res 2004; 64:2898-903.
8. Kroll TG. Molecular rearrangements and morphology in thyroid cancer. Am J Pathol 2002;160:1941-4.
9. Fusco A, Chiappetta G, Hui P, et al. Assessment of RET/PTC oncogene activation and clonality in thyroid nodules with incomplete morphological evidence of papillary carcinoma: a search for the early precursors of papillary cancer. Am J Pathol 2002;160:2157-67.
10. Simek K, Kimmel M. A note on estimation of dynamics of multiple gene expression based on singular value decomposition. Math Biosci 2003;182: 183-99.
11. Holter NS, Maritan A, Cieplak M, Fedoroff NV, Banavar JR. Dynamic modeling of gene expression data. Proc Natl Acad Sci U S A 2001;98:1693-8.
12. Fujarewicz K, Wiench M. Selecting differentially expressed genes for colon tumor classification. Int J Applied Math Comp Science 2003;13:327-35.
13. Christianini N, Shawe-Taylor J. An introduction to support vector machines and other kernel-based learning methods. Cambridge University Press: 2000.
14. Guyon I, Weston J, Barnhill S, Vapnik V. Gene selection for cancer classification using Support Vector Machines. Machine Learning 2002;64:389-422.
15. Fujarewicz K, Kimmel M, Rzeszowska-Wolny J, Swierniak A. A note on classification of gene expression data using support vector machines. J Biol Systems 2003;11:43-56.
16. Golub TR, Slonim DK, Tamayo P, et al. Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science 1999;286:531-7.
17. Wasenius VM, Hemmer S, Kettunen E, Knuutila S, Franssila K, Joensuu H. Hepatocyte growth factor receptor, matrix metalloproteinase-11, tissue inhibitor of metalloproteinase-1, and fibronectin are up-regulated in papillary thyroid carcinoma: a cDNA and tissue microarray study. Clin Cancer Res 2003;9: 68-75.
18. Kholova I, Ryska A, Ludvikova M, Cap J, Pecen L. Dipeptidyl peptidase IV expression in thyroid cytology: retrospective histologically confirmed study. Cytopathology 2003;14:27-31.
19. Chen WT, Kelly T. Seprase complexes in cellular invasiveness. Cancer Metastasis Rev 2003;22:259-69.
20. Aratake Y, Umeki K, Kiyoyama K, et al. Diagnostic utility of galectin-3 and CD26/DPPIV as preoperative diagnostic markers for thyroid nodules. Diagn Cytopathol 2002;26:366-72.
21. Kehlen A, Lendeckel U, Dralle H, Langner J, Hoang-Vu C. Biological significance of aminopeptidase N/CD13 in thyroid carcinomas. Cancer Res 2003;63:8500-6.
22. Umeki K, Tanaka T, Yamamoto I, et al. Differential expression of dipeptidyl peptidase IV (CD26) and thyroid peroxidase in neoplastic thyroid tissues. Endocr J 1996;43:53-60.
23. Poblete MT, Nualart F, del Pozo M, Perez JA, Figueroa CD. Alpha 1-antitrypsin expression in human thyroid papillary carcinoma. Am J Surg Pathol 1996; 20:956-63.
24. Bartolazzi A, Gasbarri A, Papotti M, et al. Application of an immunodiagnostic method for improving preoperative diagnosis of nodular thyroid lesions. Lancet 2001;357:1644-50.
25. Inaba M, Sato H, Abe Y, Umemura S, Ito K, Sakai H. Expression and significance of c-met protein in papillary thyroid carcinoma. Tokai J Exp Clin Med 2002;27:43-9.
26. Ramirez R, Hsu D, Patel A, et al. Overexpression of hepatocyte growth factor/scatter factor (HGF/SF) and the HGF/SF receptor (cMET) are associated with a high risk of metastasis and recurrence for children and young adults with papillary thyroid carcinoma. Clin Endocrinol (Oxf) 2000;53:635-44.
27. Finley DJ, Arora N, Zhu B, Gallagher L, Fahey TJ III. Molecular profiling distinguishes papillary carcinoma from benign thyroid nodules. J Clin Endocrinol Metab 2004;89:3214-23.
28. Ito Y, Miyoshi E, Uda E, et al. 14-3-3 sigma possibly plays a constitutive role in papillary carcinoma, but not in follicular tumor of the thyroid. Cancer Lett 2003; 200:161-6.
29. Bohm JP, Niskanen LK, Pirinen RT, et al. Reduced CD44 standard expression is associated with tumour recurrence and unfavourable outcome in differentiated thyroid carcinoma. J Pathol 2000;192:321-7.
30. Bieche I, Franc B, Vidaud D, Vidaud M, Lidereau R Analyses of MYC, ERBB2, and CCND1 genes in benign and malignant thyroid follicular cell tumors by real-time polymerase chain reaction. Thyroid 2001; 11:147-52.
31. Castellone MD, Celetti A, Guarino V, et al. Autocrine stimulation by osteopontin plays a pivotal role in the expression of the mitogenic and invasive phenotype of RET/PTC-transformed thyroid cells. Oncogene 2004; 23:2188-96.
32. Kim JY, Cho H, Rhee BD, Kim HY. Expression of CD44 and cyclin D1 in fine needle aspiration cytology of papillary thyroid carcinoma. Acta Cytol 2002;46:679-83.
33. Bohm J, Niskanen L, Kiraly K, et al. Expression and prognostic value of α-, β-, and γ-catenins in differentiated thyroid carcinoma. J Clin Endocrinol Metab 2000;85:4806-11.
34. Nagy N, Decaestecker C, Dong X, et al. Characterization of ligands for galectins, natural galactoside-binding immunoglobulin G subfractions and sarcolectin and also of the expression of calcydin in thyroid lesions. Histol Histopathol 2000;15:503-13.
35. Ito Y, Yoshida H, Nakano K, et al. Overexpression of human tumor-associated antigen, RCAS1, is significantly linked to dedifferentiation of thyroid carcinoma. Oncology 2003;64:83-9.
36. Rocha AS, Soares P, Seruca R, et al. Abnormalities of the E-cadherin/catenin adhesion complex in classic papillary thyroid carcinoma and in its diffuse sclerosing variant. J Pathol 2001;194:358-66.
37. Rocha AS, Soares P, Machado JC, et al. Mucoepidermoid carcinoma of the thyroid: a tumour histotype characterised by P-cadherin neoexpression and marked abnormalities of E-cadherin/catenins complex. Virchows Arch 2002;440:498-504.
38. Patel A, Straight AM, Mann H, et al. Matrix metalloproteinase (MMP) expression by differentiated thyroid carcinoma of children and adolescents. J Endocrinol Invest 2002;25:403-8.
39. Lai ML, Rizzo N, Liguori C, Zucca G, Faa G. α-1-antichymotrypsin immunoreactivity in papillary carcinoma of the thyroid gland. Histopathology 1998;33: 332-6.
40. Ito Y, Takeda T, Kobayashi T, et al. Plasminogen activation system in active even in thyroid tumors; an immunohistochemical study. Anticancer Res 1996;16: 81-9.
41. Haugen BR, Larson LL, Pugazhenthi U, et al. Retinoic acid and retinoid X receptors are differentially expressed in thyroid cancer and thyroid carcinoma cell lines and predict response to treatment with retinoids. J Clin Endocrinol Metab 2004;89:272-80.
42. Scarpino S, Stoppacciaro A, Pellegrini C, et al. Expression of EDA/EDB isoforms of fibronectin in papillary carcinoma of the thyroid. J Pathol 1999;188: 163-7.
43. Shi Y, Parhar RS, Zou M, et al. Tissue inhibitor of metalloproteinases-1 (TIMP-1) mRNA is elevated in advanced stages of thyroid carcinoma. Br J Cancer 1999;79:1234-9.
44. Aldred MA, Ginn-Pease ME, Morrison CD, et al. Caveolin-1 and caveolin-2, together with three bone morphogenetic protein-related genes, may encode novel tumor suppressors down-regulated in sporadic follicular thyroid carcinogenesis. Cancer Res 2003;63: 2864-71.
45. Yano Y, Uematsu N, Yashiro T, et al. Gene expression profiling identifies platelet-derived growth factor as a diagnostic molecular marker for papillary thyroid carcinoma. Clin Cancer Res 2004;10:2035-43.
46. Whitney AR, Diehn M, Popper SJ, et al. Individuality and variation in gene expression patterns in human blood. Proc Natl Acad Sci U S A 2003;100:1896-901.
47. Tamimi DM. The association between chronic lymphocytic thyroiditis and thyroid tumors. Int J Surg Pathol 2002;10:141-6.
48. Jarza̧b B, Włoch J, Wiench M. Molecular changes in thyroid neoplasia. Folia Histochem Cytobiol 2001;39 Suppl 2:26-7.