. 2019 Oct 31;6:251. doi: 10.1038/s41597-019-0258-4

Table 1.

Overview of Data Descriptors in the Scientific Data multi-omics data collection.

Dataset	Omics	Experimenal Design	Organism	Sample	Block factor	Phentotypic data	Full multiomics data?	Raw data	Processed data	Scripts available	Name and Goal of specific software development
Stategra	RNA-seq, microRNA-seq, ChIP-seq, RRBS, Dnase-seq, ATAC-seq, scRNA-seq, scATAC-seq, proteomics, metabolomics	Time course, 3 replicates, 6 points, Treatment and Control Samples, 1 cell line	Mouse	B3 cell line	Cell culture. Different batches for different omics	NO	NO	GEO, Proteome-Xchange, Metabolomics,	STATegraKB, Lifebit, Figshare	YES	STATegraKB, Integrative analysis
Personal Genome Project-UK (PGP-UK)	RNA-seq, WGBS, 450 K Methylomics, WGS	10 individuals	Human	Blood	Individuals	YES	YES	ENA, ArrayExpress	Lifebit	YES	PGP-UK portal
ColPortal	Mehylation 450k arrays, 16 S sequencing, expression arrays, microRNA arrays	167 individuals, 3 histological cancer subtypes (Serrated, Convencional, hMSI), CR polyps and surrounding healthy tissue	Human	Colon tissue	Individuals	YES	NO	ENA, GEO	Figshare, ColPortal	YES	ColPortal, Integrative analysis
Potato Virus Y (PVY)	Expression arrays, smallRNA-seq, Degradome-seq, Proteomics	Time course, 7 time points, triplicates, 2 leaf types, 2 genotypes	Potato	Leaf	Plant	YES	NO	GEO	fairdomhub	YES	NA
Sleep Deprivation	RNA-seq, Metabolomics	Treatment-control; 32 genotypes, 3 bio replicates	Mouse	Cortex and Liver, (RNAs-seq). Plasma (metabolomics)	Individual	YES an uses HPO	YES	GEO, Figshare	Group’s server	YES	DGO, Analysis reproducibility
Fibrotic Kidney	RNA-seq, microRNA-seq, proteomics	Time course, 4 time points, 2 treatments,2–4 bio replicates	Mouse	Kidney	Individual	NO	Nearly	GEO, Proteome-Xchange	GEO	YES	Mouse Kidney FibrOmics browser, Search for expression patterns across omics