Open Access Highly Accessed Research article

Development of a human mitochondrial oligonucleotide microarray (h-MitoArray) and gene expression analysis of fibroblast cell lines from 13 patients with isolated F1Fo ATP synthase deficiency

Alena Čížková125, Viktor Stránecký12, Robert Ivánek124, Hana Hartmannová12, Lenka Nosková2, Lenka Piherová12, Markéta Tesařová13, Hana Hansíková13, Tomáš Honzík3, Jiří Zeman13, Petr Divina4, Andrea Potocká15, Jan Paul15, Wolfgang Sperl6, Johannes A Mayr6, Sara Seneca7, Josef Houštĕk15 and Stanislav Kmoch12*

Author Affiliations

1 Center for Applied Genomics, 1st Faculty of Medicine, Charles University, Prague, Czech Republic

2 Institute of Inherited Metabolic Disorders, 1st Faculty of Medicine, Charles University, Prague, Czech Republic

3 Department of Pediatrics, 1st Faculty of Medicine, Charles University, Prague, Czech Republic

4 Institute of Molecular Genetics, Academy of Science of the Czech Republic, Prague, Czech Republic

5 Department of Bioenergetics, Institute of Physiology, Academy of Science of the Czech Republic, Prague, Czech Republic

6 Department of Pediatrics, Paracelsus Medical University, Salzburg, Austria

7 Center of Medical Genetics, Free University Brussels, Brussels, Belgium

For all author emails, please log on.

BMC Genomics 2008, 9:38  doi:10.1186/1471-2164-9-38

Published: 25 January 2008

Additional files

Additional file 1:

Annotation of h-MitoArray. List of selected genes with corresponding symbols, accession and LocusLink codes. Probes showing hybridization signal with fluorescently labeled panomers and fluorescently labeled cDNA are presented as "signal detected".

Format: XLS Size: 314KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 2:

Functional annotation of the h-MitoArray. Functional annotation of selected genes and comparison of the h-MitoArray gene content against whole human genome reference set.

Format: XLS Size: 34KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 3:

Expression matrix – samples compared to common reference. Ratios of Log2 sample gene intensities against Log2 gene intensities of common reference.

Format: XLS Size: 719KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 4:

Expression matrix – patients compared to controls. Ratios of individual patient Log2 gene intensities against the average of the Log2 controls intensities.

Format: XLS Size: 526KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 5:

Differentially expressed genes between all patients and controls. List of genes detected as differentially expressed between all studied ATP synthase deficient and control fibroblast cell lines at adjusted P < 0.01 significance level.

Format: XLS Size: 46KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 6:

Characterization of defined patient groups using ANOVA analysis. List of genes detected as differentially expressed between defined patient groups using ANOVA analysis and unadjusted P < 0.01 significance level.

Format: XLS Size: 95KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 7:

Lists of differentially expressed genes in M group. Lists of genes detected as differentially expressed in M group, when compared to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 42KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 8:

Lists of differentially expressed genes in N1 group. Lists of genes detected as differentially expressed in N1 group, when compared to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 103KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 9:

Lists of differentially expressed genes in N2 group. Lists of genes detected as differentially expressed in N2 group, when compared to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 43KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 10:

Pathway analysis in M group. Pathways and gene expression changes identified by KEGGArray software in M group.

Format: PDF Size: 289KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 11:

Pathway analysis in N1 group. Pathways and gene expression changes identified by KEGGArray software in N1 group.

Format: PDF Size: 289KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 12:

Differentially expressed genes in patient P1. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 68KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 13:

Differentially expressed genes in patient P2. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 32KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 14:

Differentially expressed genes in patient P3. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 35KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 15:

Differentially expressed genes in patient P4. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 42KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 16:

Differentially expressed genes in patient P5. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 42KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 17:

Differentially expressed genes in patient P6. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 55KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 18:

Differentially expressed genes in patient P7. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 80KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 19:

Differentially expressed genes in patient P8. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 66KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 20:

Differentially expressed genes in patient P9. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 27KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 21:

Differentially expressed genes in patient P10. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 119KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 22:

Differentially expressed genes in patient P11. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 114KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 23:

Differentially expressed genes in patient P12. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 32KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 24:

Differentially expressed genes in patient P13. Lists of genes detected as differentially expressed in individual patients comparing to controls at adjusted P < 0.01 significance level.

Format: XLS Size: 37KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data