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Table 1 The comparison between algal functional annotation tool (AFAT) [[22]] and AlgaePath

From: AlgaePath: comprehensive analysis of metabolic pathways using transcript abundance data from next-generation sequencing in green algae

Content AFAT AlgaePath
Species Chlamydomonas reinhardtii Chlamydomonas reinhardtii
Chlorella NC64A Neodesmus sp. UTEX 2219-4
Search interface Identifiers ID and keyword Gene symbol, Gene ID from various database, keyword, DNA/protein sequences
Pathways information of each transcript Yes, only pathway map (out link to KEGG) Yes, combine pathway map with transcript abundance profiles under various conditions
Gene group analysis (Pathway enrichment) Yes, only mark genes in a pathway map (out link to KEGG) Yes, not only mark genes in a pathway map but with transcript abundance profiles under various conditions
Differentially expression genes No Yes, easily identify differentially expressed genes between two samples
Expression similar search Yes, only provide identifier ID in the expression map Yes, provide detail information of co-expression genes
Pathway map with gene expression profiles No Yes