A resampling-based meta-analysis for detection of differential gene expression in breast cancer

doi:10.1186/1471-2407-8-396

BMC Cancer

Volume 8

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Gur-Dedeoglu B
Konu O
Kir S
Ozturk AR
Bozkurt B
Ergul G
Yulug IG

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Konu O
Kir S
Ozturk AR
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Ergul G
Yulug IG
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Research article

A resampling-based meta-analysis for detection of differential gene expression in breast cancer

Bala Gur-Dedeoglu¹^* , Ozlen Konu¹^* , Serkan Kir¹ , Ahmet Rasit Ozturk¹ , Betul Bozkurt² , Gulusan Ergul³ and Isik G Yulug¹

¹Department of Molecular Biology and Genetics, Faculty of Science, Bilkent University, TR-06800, Ankara, Turkey

²Department of General Surgery, Ankara Numune Research and Teaching Hospital, TR-06100, Ankara, Turkey

³Department of Pathology, Ankara Numune Research and Teaching Hospital, TR-06100, Ankara, Turkey

author email corresponding author email* Contributed equally

BMC Cancer 2008, 8:396doi:10.1186/1471-2407-8-396


Published:	30 December 2008

Additional files

Additional file 1:

Complete list of common IMAGE clones. The data represents 4769 common IMAGE clones from combined Sorlie and Zhao datasets from the study of Zhao et al. [2].

Format: XLS Size: 2.4MB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 2:

Complete list of common IMAGE clones. The data represents 4769 common IMAGE clones from combined Sorlie and Zhao datasets from the study of Sorlie et al. [1].

Format: XLS Size: 3.1MB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 3:

Genes used for real-time qRT-PCR analysis. Gene names, accession numbers and gene specific primer pairs used for real-time qRT-PCR analysis of the selected genes.

Format: PDF Size: 79KB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional file 4:

Correlation of global median and quantile normalized data. The figure shows the correlation of global median and quantile normalized data of ductal (D) and normal (N) tissue samples.

Format: PDF Size: 116KB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional file 5:

Gene set differentially expressed between ductal (D) and normal (N) breast tissue samples. The data provided represents the list of 298 IMAGE clones differentially expressed between ductal (D) and normal (N) samples with 90% significance.

Format: XLS Size: 89KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 6:

Gene set differentially expressed between lobular (L) and normal (N) breast tissue samples. The data provided represents the list of 216 IMAGE clones differentially expressed between lobular (L) and normal (N) samples with 90% significance.

Format: XLS Size: 67KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 7:

Gene set differentially expressed between ductal (D) and lobular (L) breast tissue samples. The data provided represents the list of 66 IMAGE clones differentially expressed between ductal (D) and lobular (L) samples with 80% significance.

Format: XLS Size: 38KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 8:

List of meta-analysis specific genes. The file includes the list of genes differentially expressed between DN, LN, and DL samples.

Format: XLS Size: 17KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 9:

Validation of meta-analysis gene lists by three independent microarray datasets. The file represents the gene lists obtained by comparing the DN and LN meta-gene list to the gene expression profiles of normal and breast tumor tissues from three independent microarray datasets.

Format: XLS Size: 20KB Download file

This file can be viewed with: Microsoft Excel Viewer