Published August 31, 2021
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A deep transcriptome meta-analysis reveals sex-based molecular differences in Multiple Sclerosis (Results and supplementary material)
Creators
- 1. Bioinformatics and Biostatistics Unit, Principe Felipe Research Center (CIPF), 46012, Valencia, Spain
- 2. Foundation Valencian Institute of Oncology (FIVO), 46009, Valencia, Spain
- 3. Bioinformatics and Biostatistics Unit, Principe Felipe Research Center (CIPF), 46012, Valencia, Spain & Faculty of Health Sciences. San Jorge University, 50830, Zaragoza, Spain
- 4. Instituto de Investigación Sanitaria Puerta de Hierro-Segovia de Arana (IDIPHISA), C/Joaquín Rodrigo 2, Majadahonda, 28222 Madrid, Spain
- 5. Biomedical Imaging Unit FISABIO-CIPF, Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunidad Valenciana, 46012, Valencia, Spain
Description
Results and supplementary material of the manuscript "A deep transcriptome meta-analysis reveals sex-based molecular differences in Multiple Sclerosis".
The content of the files is detailed below:
- 00_R_package_versions.xlsx Versions of the R packages used in the analyses.
- Results of the 3 differential gene expression (DGE) comparisons. Each tab corresponds to the results of one of the nine individual studies analyzed.
- 01_ED_Differences_in_men.xlsx Contrast of differences in men: (MS.Men vs Ctrl.Men)
- 01_ED_Differences_in_women.xlsx Contrast of differences in women: (MS.Women vs Ctrl.Women)
- 01_ED_Sex_differences.xlsx Contrast of sex differences: (MS.Women vs Ctrl.Women) vs (MS.Men vs Ctrl.Men)
- 02_Meta-analyses_results.xlsx Results of the 9 DGE meta-analyses performed (3 tissues x 3 contrasts). Each tab contains the results of one meta-analysis.
- 03_GSA_Nervous_tissue_Results.xlsx GSA results of the 3 meta-analyses of studies with nerve tissue samples. The ontologies used were: Biological Processes (Gene Ontology) and KEGG pathways.
- 03i_GSA_Nervous_tissue_Intersections_of_biological_processes.xlsx Analysis of biological processes unique to each group and common to several of them. Each combination of contrast and sign of the LOR is considered as a group.
- 03i_GSA_Nervous_tissue_Intersections_of_KEGG_pathways.xlsx Analysis of KEGG pathways unique to each group and common across several of them. Each combination of contrast and sign of the LOR is considered as a group.
The first tab of each file contains an explanation of the abbreviations.
The file "ms-code.tar.gz" contains examples of the code used in each of the steps of the analysis: data loading and normalization (00_Data_loading.Rmd), differential gene expression (01_DGE.Rmd), DGE meta-analysis (02_Meta-analysis_of_DGE.R) and gene set anlysis of the meta-analysis (03_GSA_of_MA.R).
Notes
Funding:
Research supported by Principe Felipe Research Center and GV/2020/186 grant.
Acknowledgements:
The authors thank the Principe Felipe Research Center (CIPF) for providing access to the cluster, co-funded by European Regional Development Funds (FEDER) in Valencian Community 2014-2020.
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