FishExp

FishExp provides integrated analysis of gene expression and alternative splicing in fish by leveraging public RNA-seq datasets for comparative and functional studies.

Key Features:

• Extensive dataset coverage: Contains 26,081 RNA-seq experiments across 44 fish species.
• Query and alignment support: Supports queries by gene identifiers, gene symbols, functional terms, and BLAST alignments.
• Differential expression analysis: Performs differential gene expression analysis on RNA-seq datasets.
• Alternative splicing analysis: Detects and analyzes alternative splicing events across samples.
• Functional enrichment analysis: Provides functional enrichment analysis options for interpreting gene- and splicing-level changes.
• Visualization at multiple levels: Offers visualization of genes, transcripts, and splicing events.
• Curated metadata and standardized processing: Integrates manually curated sample information and applies standardized data processing protocols to ensure consistency.

Scientific Applications:

• Ecological and conservation genomics: Enables investigation of gene expression and splicing responses relevant to fish ecology and conservation.
• Comparative and biomedical research: Facilitates study of gene regulation and splicing mechanisms with potential relevance across species, including humans.
• Aquaculture and industry: Supports analyses that can inform aquaculture practices and investigations into traits related to nutritional quality or production.

Methodology:

Integrates public RNA-seq experiments, uses manually curated sample metadata, and applies uniform, standardized data-processing protocols for consistent gene expression and alternative splicing analysis.