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BioMed Research International
Volume 2013 (2013), Article ID 510905, 11 pages
Research Article

Ovarian and Breast Cancer Spheres Are Similar in Transcriptomic Features and Sensitive to Fenretinide

1Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTU-SM), 225 Chong-Qing South Road, Shanghai 200025, China
2Graduate School of the Chinese Academy of Sciences, Beijing 100049, China

Received 17 April 2013; Revised 16 August 2013; Accepted 18 August 2013

Academic Editor: George Perry

Copyright © 2013 Haiwei Wang et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Supplementary Material

Total RNA from A2780, MCF7, and SUM159 parental and sphere cells was amplified and labeled with biotin according to the standard Affymetrix® protocol. The fragmented, biotinylated cDNA was then subjected to hybridization with the GeneChip® Human Genome-U133 Plus 2.0 array (Affymetrix, Santa Clara, CA). DAVID Bioinformatics Resources analyses of biological themes were performed to explore the underlying themes of those statistically significant differentially expressed genes in terms of biological relevance, e.g., functional relevance as revealed by Gene Ontology (GO) enrichment analysis and regulatory relevance as revealed by UCSC conserved transcription factor binding site (TFBS) enrichment analysis. The Benjamini-Hochberg derived step-up procedure of False Discovery Rate (FDR) was applied to account for multiple hypothesis testing, thus to assess the significance of the biological theme enrichments. The transcriptome profilings of A2780, MCF7, and SUM159 parental and sphere cells are available at GEO accession GSE43657.

Table S1.The common regulated genes in A2780, MCF7 and SUM159 spheres cells.

Table S2. The enriched transcription factors from the changed genes in A2780 spheres cells.

Table S3. The enriched transcription factors from the changed genes in MCF7 spheres cells.

Table S4. The enriched transcription factors from the changed genes in SUM159 spheres cells.

  1. Supplementary Material