Open Access Research article

Interplay between estrogen receptor and AKT in Estradiol-induced alternative splicing

Poornima Bhat-Nakshatri1, Eun-Kyung Song1, Nikail R Collins1, Vladimir N Uversky37, A Keith Dunker34, Bert W O’Malley5, Tim R Geistlinger68, Jason S Carroll69, Myles Brown6 and Harikrishna Nakshatri12*

Author Affiliations

1 Departments of Surgery, Indiana University School of Medicine, 980 West Walnut Street, Indianapolis, IN 46202, USA

2 Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, IN, 46202, USA

3 Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA

4 Department of Molecular and Cellular Biology, Indiana University School of Medicine Program in Bioinformatics, School of Informatics, Indiana University, Indianapolis, IN 46202, USA

5 Department of Medical Oncology, Baylor College of Medicine, Houston, TX 77030, USA

6 Dana-Farber Cancer Institute, Boston, MA 02115, USA

7 Current address: Department of Molecular Medicine, University of South Florida, College of Medicine, 12901 Bruce B. Downs Blvd, Tampa, FL 33612, USA

8 Amyris, Emeryville, CA 94608, USA

9 Cambridge Research Institute and Department of Oncology, Cancer Research UK, University of Cambridge, Robinson Way, Cambridge, CB2 0RE, UK

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BMC Medical Genomics 2013, 6:21  doi:10.1186/1755-8794-6-21

Published: 11 June 2013

Additional files

Additional file 1:

E2-induced splice events common to MCF-7p and MCF-7AKT cells. This file describes E2-regulated splicing events common to MCF-7p and MCF-7AKT cells. In addition, this file also indicates ERα binding sites in the genes that undergo E2-regulated alternative splicing as well as the effect of E2 on expression of these genes in MCF-7p and MCF-7AKT cells. Furthermore, the early (three hours) and the late effects (24 hours) of E2 treatment on overall transcription of genes (extracted from NURSA website) are also shown. Longer version (LF) of the transcript in the array [reference (R) or the variant (V)] is also indicated. Positive number in fold change column indicates E2-induced splicing generating higher levels of the variant whereas negative number indicates repression of splicing event leading to generation of the variant. ASA, alternative splice acceptor; ASD; Alternative splice donor; ES, exon skipping; IR, intron retention; PEID, partial internal exon deletion.

Format: XLS Size: 125KB Download file

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Additional file 2:

E2-induced splicing events observed in MCF-7p cells. This file is similar to Additional file 1 except that splicing events unique to MCF-7p cells are indicated.

Format: XLS Size: 127KB Download file

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Additional file 3:

E2-induced splicing events observed in MCF-7AKT cells. This file is similar to Additional file 1 except that splicing events unique to MCF-7AKT cells are shown.

Format: XLS Size: 114KB Download file

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Additional file 4:

Summary of ERα binding and E2-regulated expression of genes described in Additional file 1.

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Additional file 5:

Primer sequences used for qRT-PCR analyses.

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