3Omics: a web-based systems biology tool for analysis, integration and visualization of human transcriptomic, proteomic and metabolomic data

Table 1 Features of integrated analysis tools according to requirements identified in 3Omics

Tool name	Ref	R1	R1	R1	R2	R2	R3	R3	R3	R3	R3	R3	R3	R3	R3	R4	R4	R4	R4
		Installation-free	Free for academics	No registration	Save as SVG/SIF	Processed data downloaded	Human-specific analysis	Network visualization	Omics data integrated analysis	Correlation analysis	Coexpression profiling	Phenotype mapping	Pathway enrichment analysis	GO enrichment analysis	Links to external DBs	Multiple conditions and time-series data	Transcriptome data	Proteome data	Metabolome data
3Omics		●	●	●	●	●	●	●	●	●	●	●	●	●	●	●	●	●	●
VANTED	[10]		●	●		●	○	●								●	●	●	●
VisANT	[11]	○	●	○	●	●	○	●						○	●		●	○	○
NAViGaTOR	[15]		●	●			○	●									○	○	○
Cerebral	[16]		●	●	●		○	●									○	○	○
Paintomics	[20]	●	●	●	●	●	○		○			○			●		●		●
ProMeTra	[21]	●	●	●	●	●	○		○			○			●	●	●	●	●
KappaView	[22]	●	●	●	●	●			●			○			●	●	●		●
MapMan	[23]		●	●
ChromeTracks	[24]		●	●	●	●	○		○		○				●	●	●		●
PaVESy	[25]	●	●	●		●	○					○			●		○	○	○
IPA	[26]				●		●	●	●	●	●	●	●	●	●	●	●	●	●

(R1) Accessibility, (R2) Data Export and Exchange, (R3) Functions and Utilities, (R4) Data Source Type. Filled circles indicate tools with the corresponding features. Empty circles indicate tools with partial functionality.

ISSN: 1752-0509