InpactorDB

InpactorDB provides a curated reference library of lineage-level long terminal repeat retrotransposon (LTR-RT) sequences for plant genomes to support identification and classification of LTR-RTs in genomic and evolutionary studies.

Key Features:

• Non-redundant sequence collection: Contains 67,241 non-redundant LTR retrotransposon sequences.
• Taxonomic coverage: Sequences are derived from 181 plant species across 98 families.
• Lineage-level classification: Provides classification of LTR-RTs at the lineage level.
• Integration with Inpactor: Linked with the Inpactor tool for classification workflows.
• Machine learning-based free-alignment methods: Employs machine learning-based free-alignment methods to standardize the classification procedure.

Scientific Applications:

• Genetic, genomic and cytogenetic studies: Uses LTR-RTs as evolutionary markers in genetic, genomic, and cytogenetic analyses.
• Genomic research: Supports accurate identification and classification of LTR-RTs in newly sequenced plant genomes.
• Evolutionary biology studies: Enables analysis of evolutionary dynamics and functional roles of LTR retrotransposons in plant genomes.

Methodology:

Integration with the Inpactor tool using machine learning-based free-alignment methods to standardize lineage-level classification of LTR-RTs.