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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Identification of protein-coding and intronic noncoding RNAs down-regulated in clear cell renal carcinoma

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Author(s):
Brito, Glauber Costa [1] ; Fachel, Angela A. [1] ; Vettore, Andre Luiz [2] ; Vignal, Giselle M. [3] ; Gimba, Etel R. P. [3] ; Campos, Franz S. [3] ; Barcinski, Marcello A. [3] ; Verjovski-Almeida, Sergio [1] ; Reis, Eduardo M. [1]
Total Authors: 9
Affiliation:
[1] Univ Sao Paulo, Inst Quim, Dept Bioquim, BR-05508 Sao Paulo - Brazil
[2] Univ Fed Sao Paulo, Sao Paulo - Brazil
[3] Hosp Canc, Inst Nacl Canc MS, Rio De Janeiro - Brazil
Total Affiliations: 3
Document type: Journal article
Source: Molecular Carcinogenesis; v. 47, n. 10, p. 757-767, Oct. 2008.
Field of knowledge: Biological Sciences - Biochemistry
Web of Science Citations: 31
Abstract

The clear cell subtype of renal cell carcinoma (RCC) is the most lethal and prevalent cancer of the urinary system. To investigate the molecular changes associated with malignant transformation in clear cell RCC, the gene expression profiles of matched samples of tumor and adjacent non-neoplastic tissue were obtained from six patients. A custom-built cDNA microarray platform was used, comprising 2292 probes that map to exons of genes and 822 probes for noncoding RNAs mapping to intronic regions. Intronic transcription was detected in all normal and neoplastic renal tissues. A subset of 55 transcripts was significantly down-regulated in clear cell RCC relative to the matched nontumor tissue as determined by a combination of two statistical tests and leave-one-out patient cross-validation. Among the down-regulated transcripts, 49 mapped to untranslated or coding exons and 6 were intronic relative to known exons of protein-coding genes. Lower levels of expression of SIN3B, TRIP3, SYNJ2BP and NDE1 (P < 0.02), and of intronic transcripts derived from SND1 and ACTN4 loci (P < 0.05), were confirmed in clear cell RCC by Real-time RT-PCR. A subset of 25 transcripts was deregulated in additional six nonclear cell RCC samples, pointing to common transcriptional alterations in RCC irrespective of the histological subtype or differentiation state of the tumor. Our results indicate a novel set of tumor suppressor gene candidates, including noncoding intronic RNAs, which may play a significant role in malignant transformations of normal renal cells. (AU)

FAPESP's process: 02/13283-6 - Identification of molecular markers for cancer diagnosis and prognosis using DNA microarrays
Grantee:Sergio Verjovski Almeida
Support type: Research Projects - Thematic Grants