This article is part of the supplement: Eleventh International Conference on Bioinformatics (InCoB2012): Computational Biology

Open Access Proceedings

Comprehensive analysis of microRNAs in breast cancer

Hong-Tai Chang12, Sung-Chou Li3, Meng-Ru Ho4, Hung-Wei Pan5, Luo-Ping Ger5, Ling-Yueh Hu6, Shou-Yu Yu5, Wen-Hsiung Li47 and Kuo-Wang Tsai58*

Author Affiliations

1 Department of Surgery, Kaohsiung Veterans General Hospital, Kaohsiung, Taiwan, Republic of China

2 Department of Emergency, Kaohsiung Veterans General Hospital, Kaohsiung, Taiwan, Republic of China

3 Genomics Research Center, Academia Sinica, Taipei, Taiwan, Republic of China

4 Biodiversity Research Center, Academia Sinica, Taipei, Taiwan, Republic of China

5 Department of Medical Education and Research, Kaohsiung Veterans General Hospital, Kaohsiung, Taiwan, Republic of China

6 Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan, Republic of China

7 Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA

8 Department of Biotechnology, Tajen University, Taiwan, Republic of China

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BMC Genomics 2012, 13(Suppl 7):S18  doi:10.1186/1471-2164-13-S7-S18

Published: 13 December 2012

Additional files

Additional file 1:

Sequences of primers for miRNA detection

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Additional file 2:

Expression levels in normal and tumor tissues.

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Additional file 3:

The enriched pathway of the target gene union of hsa-miR-141 and hsa-miR-200b (tumor-preferring). The target genes of hsa-miR-141 and hsa-miR-200b were significantly enriched in the MAPK pathway (p = 2.1E-6). The target genes are labeled in red

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Additional file 4:

The enriched pathway of the target gene union of hsa-miR-22, hsa-miR-125b, and hsa-miR-99a (normal-preferring). The target genes of hsa-miR-22, hsa-miR-125b, and hsa-miR-99a were significantly enriched in the MAPK pathway (p = 2.4E-6). The target genes are labeled in red.

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Additional file 5:

Distribution of 3' end modifications. Using the alternative mapping procedure, the 3' end modification events were quantified. In this figure, only the modification events more than 1% in all libraries are illustrated

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Additional file 6:

Mapping information of miRNA reads to pre-miRNAs in all libraries.

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