Table 1.

Datasets used to identify stably expressed genes and assess their stability. Datasets are grouped based on the projects they were sourced from and are annotated for the type of dataset, number of samples, number of biological groups and the measurement used (TPM – transcripts per million, RPKM/FPKM – reads/fragments per kilobase per million or CPM – counts per million). Original studies that produced the dataset are cited along with the study where the processed version as downloaded. Processed versions of datasets marked by asterisk were downloaded from the human protein atlas www.proteinatlas.org

Project	Dataset	Type	Measurement	Number of samples	Number of groups	Citations
TCGA	TCGA carcinomas	Pan-cancer tissue	FPKM	7310	13	(26,44)
	TCGA other	Pan-cancer tissue	FPKM	1942	10	(26,44)
	TCGA BRCA CPM	Breast cancer tissue	CPM	1077	6	(26,44)
	TCGA normal	Normal tissue	FPKM	718	20	(26,44)
CCLE	CCLE carcinomas	Pan-cancer cell line	RPKM	581	19	(27,30)
	CCLE other	Pan-cancer cell line	RPKM	348	15	(27,30)
HPA	HPA tissue	Normal tissue	TPM	43	43	(45)
	HPA cell line	Normal cell line	TPM	64	64	(45)
	HPA blood sample	Blood	TPM	109	19	(45)
CPTAC	CPTAC TCGA colon	Colon cancer tissue	MS/MS intensity	95	-	(46)
FANTOM	FANTOM CAGE tissue*	Normal tissue	TPM	45	45	(47-49)
GTEx	GTEx (v7)	Normal tissue (post-mortem)	TPM	8462	29	-
Other	Daeman et al. breast cell lines	Breast cancer cell line	RPKM	64	4	(31,35)
	GSE60424 sorted blood	Blood	RPKM	28	7	(38,50)
	Monaco et al. blood*	Blood	TPM	30	30	(45,51)
	Schmiedel et al. blood*	Blood	TPM	15	15	(32,45)