Open Access Research article

Global analysis of gene expression in mineralizing fish vertebra-derived cell lines: new insights into anti-mineralogenic effect of vanadate

Daniel M Tiago1, Vincent Laizé1, Luca Bargelloni2, Serena Ferraresso2, Chiara Romualdi3 and M Leonor Cancela14*

Author Affiliations

1 Centre of Marine Sciences (CCMAR), University of Algarve, Faro, Portugal

2 Department of Public Health, Comparative Pathology and Veterinary Hygiene, University of Padova, Legnaro, Italy

3 CRIBI, University of Padova, Complesso Biologico Vallisneri, Via Ugo Bassi 58/B, Padova, Italy

4 Department of Biomedical Sciences and Medicine, University of Algarve, Faro, Portugal

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BMC Genomics 2011, 12:310  doi:10.1186/1471-2164-12-310

Published: 13 June 2011

Additional files

Additional file 1:

Biological processes GO entries occurrence among common differentially expressed genes in control versus mineralized VSa13 and VSa16 cells. Raw data was normalized using quantile method. A two class SAM test was performed; FDR and FC parameters were lower than 5 and higher than 1.5, respectively.

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Additional file 2:

Molecular function GO entries occurrence among common differentially expressed genes in control versus mineralized VSa13 and VSa16 cells. Raw data was normalized using quantile method. A two class SAM test was performed; FDR and FC parameters were lower than 5 and higher than 1.5, respectively.

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Additional file 3:

Cellular component GO entries occurrence among common differentially expressed genes in control versus mineralized VSa13 and VSa16 cells. Raw data was normalized using quantile method. A two class SAM test was performed; FDR and FC parameters were lower than 5 and higher than 1.5, respectively.

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Additional file 4:

Gene description (according to SAPD database [28]), GO classification and FC of up-regulated genes in VSa13 cells with FC higher than 10 in control versus mineralization. GO classification was subdivided in biological processes (BP), molecular function (MF) and cellular component (CC). Raw data was normalized using quantile method and then a two class SAM test was performed; FDR was limited to 5%.

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Additional file 5:

Gene description (according to SAPD database [28]), GO classification and FC of up-regulated genes in VSa16 cells with FC higher than 10 in control versus mineralization. GO classification was subdivided in biological processes (BP), molecular function (MF) and cellular component (CC). Raw data was normalized using quantile method and then a two class SAM test was performed; FDR was limited to 5%.

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Additional file 6:

Gene description (according to SAPD database [28]), GO classification and FC of down-regulated genes in VSa13 cells with FC higher than 10 in control versus mineralization. GO classification was subdivided in biological processes (BP), molecular function (MF) and cellular component (CC). Raw data was normalized using quantile method and then a two class SAM test was performed; FDR was limited to 5%.

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Additional file 7:

Gene description (according to SAPD database [28]), GO classification and FC of down-regulated genes in VSa16 cells with FC higher than 10 in control versus mineralization. GO classification was subdivided in biological processes (BP), molecular function (MF) and cellular component (CC). Raw data was normalized using quantile method and then a two class SAM test was performed; FDR was limited to 5%.

Format: DOC Size: 66KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data