Table 1.
Overview of data files/data sets
| Label | Name of data file/data set | File types (file extension) | Data repository and identifier (DOI or accession number) |
|---|---|---|---|
| Data file 1 | collection_POPULUS_NIGRA_RNASEQ_PANEL (list of the studied genotypes) | Tabular text file (.tab) | Recherche Data Gouv repository: https://doi.org/10.57745/GKXDSQ; [10] |
| Data set 1 | Information on the studied genotypes | Web files (.html) |
GnpIS: collection:POPULUS_NIGRA_RNASEQ_PANEL; [11] |
| Data file 2 | SNV_POPULUS_NIGRA_RNASEQ_PANEL_quality_control (Quality control figures) | PDF file (.pdf) | Recherche Data Gouv repository: https://doi.org/10.57745/SSDFV2; [13] |
| Data set 2 | Raw RNA-seq files | Sequencing files (.fastq) | NCBI Sequence Read Archive: SPR188754; [14] |
| Data set 3 | Steps of the experiment, from growth conditions to bioinformatic analyses | Web files (.html) | CATdb: experiment = 640; [15] |
| Data file 3 | SNV_raw_POPULUS_NIGRA_RNASEQ_PANEL (Initial variant calling file) | Variant Call Format file (.vcf) | Recherche Data Gouv repository: https://doi.org/10.57745/RBR6X0; [26] |
| Data file 4 | SNV_imputated_POPULUS_NIGRA_RNASEQ_PANEL (Imputated variant calling file) | Variant Call Format file (.vcf) | Recherche Data Gouv repository: https://doi.org/10.57745/5IQLI9; [28] |
| Data file 5 | SNV_imputated_POPULUS_NIGRA_RNASEQ_PANEL.variant_function (Annotation file1) | Tabular text files (.tab) | Recherche Data Gouv repository: https://doi.org/10.57745/PAEKL7; [29] |
| Data file 6 | SNV_imputated_POPULUS_NIGRA_RNASEQ_PANEL.exonic_variant_function (Annotation file2) | Tabular text files (.tab) | Recherche Data Gouv repository: https://doi.org/10.57745/EG9HOE; [30] |
| Data file 7 | SNV_imputated_POPULUS_NIGRA_RNASEQ_PANEL_analysis_figures (Analysis figures) | PDF file (.pdf) | Recherche Data Gouv repository: https://doi.org/10.57745/BTBR; [32] |