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DAC for Tuebingen-Stuttgart cohort

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matthias.schwab@ikp-stuttgart.de

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This DAC controls 7 datasets

Dataset ID	Description	Technology	Samples
EGAD00010001001	Primary renal cell carcinoma (RCC), RCC metastases and cell lines by Illumina 450K	Illumina 450K	62
EGAD00010001564	Primary renal cell carcinoma (RCC) by Affymetrix GeneChip miRNA 4.0	Affymetrix GeneChip miRNA 4.0	56
EGAD00010001589	Primary renal cell carcinoma (RCC) and RCC metastases by Affymetrix GeneChip HTA 2.0	Affymetrix Human Transcriptome Array 2.0	112
EGAD00010002323	GeneChip HTA 2.0 data of primary renal cell carcinoma (RCC) related to Reustle et al, Genome Med 12:2020 32. Preprocessing of microarray data was performed using Robust Multi-array Average (RMA).	GeneChip HTA 2.0	53
EGAD00010002352	GeneChip HTA 2.0 data of primary renal cell carcinoma (RCC) related to Reustle et al., Clin Transl Med 12:2022 e883. Microarrays were normalized individually using the SCAN method from the R package SCAN.UPC (version 2.26.0, R version 3.6.1). Probe sets were summarized on the Entrez GeneID level using the annotation provided by BrainArray (version 23).	GeneChip HTA 2.0	124
EGAD00010002353	GeneChip HTA 2.0 data of primary renal cell carcinoma (RCC) related to Buettner et al, Genome Med 2022. Microarrays were normalized individually using the SCAN method from the R package SCAN.UPC (version 2.26.0, R version 3.6.1). Probe sets were summarized on the Entrez GeneID level using the annotation provided by BrainArray (version 23).	GeneChip HTA 2.0	306
EGAD00010002392	GeneChip HTA 2.0 data of primary renal cell carcinoma (RCC) and RCC metastases related to Guergen et al, Front Oncol 12:2022 889789. Microarrays were normalized individually using the SCAN method from the R package SCAN.UPC (version 2.34.0). Probe sets were summarized on the Entrez GeneID level using the annotation provided by BrainArray (version 25).	GeneChip HTA 2.0	24