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

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

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]      
  1. (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.