Open Access Research article

Structural analysis of the genome of breast cancer cell line ZR-75-30 identifies twelve expressed fusion genes

Ina Schulte1, Elizabeth M Batty13, Jessica CM Pole14, Katherine A Blood15, Steven Mo16, Susanna L Cooke27, Charlotte Ng28, Kevin L Howe29, Suet-Feung Chin2, James D Brenton2, Carlos Caldas2, Karen D Howarth1* and Paul AW Edwards1*

Author Affiliations

1 Hutchison/MRC Research Centre and Department of Pathology, University of Cambridge, Cambridge, UK

2 Cancer Research UK Cambridge Research Institute and Department of Oncology, University of Cambridge, Li Ka-Shing Centre, Cambridge, UK

3 Current addresses: Department of Statistics, University of Oxford, 1 South Parks Road, Oxford, OX1 3TG, UK

4 Current addresses: BlueGnome Ltd, CPC4, Capital Park, Fulbourn, Cambridge, CB21 5XE, UK

5 Current addresses: Department of Medical Genetics, University of British Columbia, Vancouver, BC, V6H 2N1, Canada

6 Current addresses: Institute of Biomedical Engineering, Department of Engineering Science, University of Oxford, Oxford, OX3 7DQ, UK

7 Current addresses: Cancer Genome Project, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, CB10 1SA, UK

8 Current addresses: Breakthrough Breast Cancer Research Centre, Institute of Cancer Research, 237 Fulham Road, London, SW3 6JB, UK

9 Current addresses: European Bioinformatics Institute, Hinxton, Cambridgeshire, CB10 1SD, UK

For all author emails, please log on.

BMC Genomics 2012, 13:719  doi:10.1186/1471-2164-13-719

Published: 22 December 2012

Additional files

Additional file 1:

Junction and fusion transcript sequences.

Format: DOC Size: 58KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional file 2:

Confirmed structural variants in ZR-75-30.

Format: XLS Size: 34KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 3:

Genomic junction sequences.

Format: DOC Size: 28KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional file 4:

Primers for amplifying genomic or transcript junctions and full-length fusion genes.

Format: DOC Size: 65KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional file 5:

A comparison of breakpoints determined by snp6 and solexa sequencing.

Format: XLS Size: 314KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 6:

A comparison of breakpoints by 1Mb array painting and solexa sequencing data.

Format: PDF Size: 669KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 7:

Structural rearrangements determined by paired-end sequencing.

Format: XLS Size: 125KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 8:

One possible assembly of ten junctions in the 8;17 amplicon of ZR-75-30.

Format: PDF Size: 438KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 9:

Supplementary discussion: Discussion of individual fusion genes.

Format: DOC Size: 186KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data