TE-TSS

TE-TSS catalogs TE-derived transcription start sites (TSSs) in human and mouse genomes to enable systematic analysis of transposable element–derived promoters and their roles in gene regulation and transcriptome architecture.

Key Features:

• Dataset compilation: Compiled from 2681 RNA sequencing datasets encompassing diverse tissues, cell lines, and developmental stages.
• TE-derived TSS identification: Identifies 5768 TE-derived TSSs in human and 2797 TE-derived TSSs in mouse.
• Experimental validation tracking: Records experimental validation status, with 47% of human and 38% of mouse TE-derived TSSs experimentally validated.
• Tissue- and stage-specific profiling: Enables analysis of TSS usage across tissues, cell lines, and developmental stages to reveal tissue-specific gene expression patterns.
• Epigenetic promoter characterization: Captures instances of transposable elements functioning as epigenetically regulated promoters.
• Comparative genomics: Provides comparative analysis of TE-derived TSS regions across 15 mammalian species.

Scientific Applications:

• Gene regulation studies: Investigating how transposable elements contribute promoters and alter transcriptional regulatory networks.
• Development and disease research: Studying TE-derived promoter involvement in processes such as embryonic development and cancer progression.
• Tissue-specific expression analysis: Characterizing tissue- and stage-specific transcriptomic impacts of TE-derived TSSs.
• Comparative evolutionary analysis: Tracing conservation and divergence of TE-derived TSS regions across mammalian species.

Methodology:

Compiled TE-derived TSSs from 2681 RNA sequencing datasets, identified 5768 human and 2797 mouse TE-derived TSSs, recorded experimental validation status (47% human, 38% mouse), and performed comparative analysis across 15 mammalian species.