PlabiPD

PlabiPD provides functional annotation of plant genomes and maps expression data onto metabolic pathways to support pathway analysis.

Key Features:

• Functional annotation with MapMan Annotation: Integrates MapMan Annotation to assign biological functions to plant genes and gene products.
• Mercator webservice for bulk submission: Uses the Mercator webservice to automatically annotate and classify plant FASTA sequences in bulk.
• Visualization on metabolic maps: Maps plant expression data onto metabolic, transport, regulatory, and signaling pathway maps for interpretation of gene expression patterns.

Scientific Applications:

• Metabolic pathway analysis: Enables exploration and interpretation of plant metabolic networks and chemical interactions.
• Gene function analysis: Supports linking genomic data to known pathways to elucidate gene functions.
• Comparative genomics: Facilitates comparative studies across plant species using databases such as RiceCyc and MaizeCyc developed with Pathway Tools software.

Methodology:

Implements MapMan Annotation and the Mercator webservice for sequence annotation, integrates information from online databases such as WikiPathways Plants Portal (and pathway resources like RiceCyc and MaizeCyc), and constructs pathways by tethering reactions based on their inputs and outputs.