Published March 10, 2022
| Version v5
Other
Open
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 sheet corresponds to the results of one of the nine individual studies analyzed.
- 01_ED_Differences_in_IDM.xlsx Results of IDM comparison: (MS.Men vs Ctrl.Men)
- 01_ED_Differences_in_IDF.xlsx Results of IDF comparison: (MS.Women vs Ctrl.Women)
- 01_ED_Differences_in_SDID.xlsx Results of SDID comparison: (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 sheet contains the results of one meta-analysis.
- GSA results of the 3 meta-analyses of studies with nerve tissue samples. The ontologies used were: Biological Processes (Gene Ontology) and KEGG pathways.
- 03_All_Biological_Process.xlsx Complete results of GSA using Biological Processes (Gene Ontology) as ontology. Each sheet contains a comparison (IDF, IDM and SDID).
- 03_All_KEGG.xlsx Complete results of GSA using KEGG pathways as ontology. Each sheet contains a comparison (IDF, IDM and SDID).
- 03_Significant_Biological_Process.xlsx Significant GSA results using biological processes as ontology. The results are separated into gender-specific or gender-combined.
- 03_Significant_KEGG.xlsx Significant GSA results using KEGG pathways as ontology. The results are separated into gender-specific or gender-combined.
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.
Files
Files
(67.7 MB)
| Name | Size | Download all |
|---|---|---|
|
md5:0db212b094fc30c76f75c72b23139f0c
|
5.5 kB | Download |
|
md5:318e2f6a27c226a86012cff825a5e67f
|
13.0 MB | Download |
|
md5:93f639b7c24fc97689ec4e2368990a35
|
12.9 MB | Download |
|
md5:7a4952c00fd5aeec030eb87c0d23f1cf
|
12.8 MB | Download |
|
md5:6f7b7aba0634e790578ac30dd0ca470a
|
27.7 MB | Download |
|
md5:fc1c8a11d7be89a13afbae00a54e7932
|
1.2 MB | Download |
|
md5:c75d4b12414da832ea1b882fc1d8c58e
|
57.3 kB | Download |
|
md5:8f2d173b02e0e8d4f5d2728b45cddf85
|
58.4 kB | Download |
|
md5:3153e95e32329f15edabe78b6c885331
|
17.8 kB | Download |
|
md5:55f2921cfb78cbc0b1556f719ce2d2ee
|
16.7 kB | Download |