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This article is part of the supplement: International Workshop on Computational Systems Biology: Approaches to Analysis of Genome Complexity and Regulatory Gene Networks

Open Access Research

Complex sense-antisense architecture of TNFAIP1/POLDIP2 on 17q11.2 represents a novel transcriptional structural-functional gene module involved in breast cancer progression

Oleg V Grinchuk, Efthimios Motakis and Vladimir A Kuznetsov*

Author Affiliations

Bioinformatics Institute, 30 Biopolis Str. #07-01, 138672, Singapore

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BMC Genomics 2010, 11(Suppl 1):S9  doi:10.1186/1471-2164-11-S1-S9

Published: 10 February 2010

Additional files

Additional file 1:

P-values calculated by Kolmogorov-Smirnov test of Normality (α = 1%). Description: file contains two tables with P-values of Normality for the five genes of TNFAIP1/POLDIP2 SFGM and six their neighbours and two tables with P-values of Normality for 17 genes of the ERBB2 amplicon.

Format: PDF Size: 28KB Download file

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Open Data

Additional file 2:

Survival analysis for the TMEM97/TNFAIP1 (Figure S1) and TMEM199/SARM1 (Figure S2) gene pairs. Description: file contains patients grouping and Kaplan-Meier survival curves for the TMEM97/TNFAIP1 and TMEM199/SARM1 gene pairs in the Uppsala and Stockholm breast cancer cohorts.

Format: PDF Size: 191KB Download file

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Open Data

Additional file 3:

Expression data for 38 breast cancer cell lines either non-normalized or normalized to DNA copy number. File contains the original expression values for 38 breast cancer cell lines extracted from Hu et al. [12] as well as the expression values normalized to DNA copy number.

Format: XLSX Size: 28KB Download file

Open Data

Additional file 4:

Correlation matrix of the genes involved in the ERBB2 CR in breast cancer cell lines. File represents correlation matrix analysis of the genes involved in the ERBB2 CR as well as 11 'neighbouring' genes in a sample of 38 breast cancer cell lines (Kendall-Tau, α = 1%).

Format: PDF Size: 94KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 5:

Correlation analysis between the genes of the TNFAIP1/POLDIP2 SFGM and the the ERBB2 CR in breast cancer cell lines. File represents correlation analysis between the genes of the TNFAIP1/POLDIP2 SFGM and its 'neighbours' and the genes involved in the ERBB2 CR and its 'neighbour' genes in 38 breast cancer cell lines (Kendal-Tau, α = 1%).

Format: PDF Size: 47KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data