Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

OncomiRs like let-7 and miR-21 are deregulated in two types of benign tumors: Fibroadenoma and Fibroadenomatosis

ABSTRACT: In this study we have preformed miRNA and mRNA expression profiling of benign breast tumors, breast cancers, and normal breast tissue. We have identified cancer-related miRNAs in benign tumors, with their deregulation similar to that in cancer tissue. In addition we have performed miRNA-mRNA correlation studies.

ORGANISM(S): Homo sapiens

SUBMITTER: Andliena Tahiri

PROVIDER: E-MTAB-779 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Deregulation of cancer-related miRNAs is a common event in both benign and malignant human breast tumors.

Tahiri Andliena A Leivonen Suvi-Katri SK Lüders Torben T Steinfeld Israel I Ragle Aure Miriam M Geisler Jürgen J Mäkelä Rami R Nord Silje S Riis Margit L H ML Yakhini Zohar Z Kleivi Sahlberg Kristine K Børresen-Dale Anne-Lise AL Perälä Merja M Bukholm Ida R K IR Kristensen Vessela N VN

Carcinogenesis 20131008 1

MicroRNAs (miRNAs) are endogenous non-coding RNAs, which play an essential role in the regulation of gene expression during carcinogenesis. The role of miRNAs in breast cancer has been thoroughly investigated, and although many miRNAs are identified as cancer related, little is known about their involvement in benign tumors. In this study, we investigated miRNA expression profiles in the two most common types of human benign tumors (fibroadenoma/fibroadenomatosis) and in malignant breast tumors ...[more]

PMID: 24104550

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Project description:Background. Although gene expression arrays have been used to generate molecular predictors of relapse and drug sensitivity in breast cancer, no large study describes genes and exons differentially expressed between breast cancer and benign lesions. Methods. One hundred and sixty-five tumour samples were obtained by fine needle aspiration (FNA). cDNA were hybridized on Splice ArrayTM. A nearest centroid prediction rule was developed to classify lesions as malignant or benign on a training set, and its performance evaluated on an independent validation set. A two-way ANOVA model was used to identify probesets that present a differential expression between cancer and benign lesions while adjusting for scan dates. P-values were adjusted for False Discovery Rate. Findings. Overall 120 breast cancers and 45 benign lesions were included in the study. A 1228-probeset molecular classifier for breast cancer diagnosis was generated from the training set (n=94). This signature accurately classified all samples (100% accuracy, 95% exact CI: 96-100%). In the validation set (n=71), the molecular predictor accurately classified 68 out of 71 tumours (96%, 95% CI: 88-99%). When the 165 samples were taken into account, 37 858 exon-probesets (5.4%) and 3733 genes (20%) were found to be differentially expressed between malignant and benign conditions (adjusted p-value<0.05). Pathway analyses showed that genes involved in spliceosome assembly were significantly enriched in malignant condition (permutation p=0.002). In the same population of 165 samples, 956 exon-probesets presented both a higher intensity and higher splice index in breast cancer, although located on unchanged genes. Interpretation. The present study provides a thorough description of differentially expressed exons between breast cancer and benign lesions, and emphasizes the contribution of spliceosome and alternative transcripts to the molecular portrait of breast malignancy. This allowed the development of a molecular classifier for breast cancer diagnosis using FNA.

Dataset Information

OncomiRs like let-7 and miR-21 are deregulated in two types of benign tumors: Fibroadenoma and Fibroadenomatosis

Publications

Deregulation of cancer-related miRNAs is a common event in both benign and malignant human breast tumors.

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