PEATmoss

PEATmoss provides a unified gene expression atlas for the model moss Physcomitrella patens by aggregating CombiMatrix and NimbleGen microarray and RNA sequencing datasets to enable comprehensive analysis for comparative genomics and evolutionary developmental biology.

Key Features:

• Unified Data Integration: Consolidates publicly available Physcomitrella patens gene expression data from CombiMatrix and NimbleGen microarrays and RNA sequencing into a single dataset.
• Visualization Methods: Provides multiple visualization methods to compare expression profiles across experiments and genes.
• Expanded Dataset: Includes 35 novel expression experiments not previously present in other expression atlases.
• Cross-Annotation Compatibility: Incorporates a lookup database enabling queries across different gene annotation versions and providing access to Physcomitrella patens annotations and related resources.
• Data Export and Presentation: Supports export of expression data in formats compatible with spreadsheet software and generation of publication-ready figures.

Scientific Applications:

• Comparative Genomics: Facilitates cross-experiment comparisons of gene expression to support comparative genomics analyses in Physcomitrella patens.
• Evolutionary Developmental Biology (evo-devo): Provides expression data for analysis of developmental processes and evolutionary changes in gene regulation.
• Gene Function and Regulation Studies: Enables analysis of gene function and regulation across diverse experimental conditions in Physcomitrella patens.

Methodology:

Integration of diverse datasets from multiple platforms into a single database was performed through meticulous curation and standardization to ensure compatibility and accuracy, supported by backend infrastructure to enable efficient data retrieval and visualization.