DBTSS

DBTSS provides precise positional information for transcription start sites (TSSs) of eukaryotic mRNAs to support analyses of transcriptional regulation across tissues, developmental stages, and species.

Key Features:

• Extensive Data Collection: Includes over 418 million TSS tag sequences derived from human adult and embryonic tissues and multiple mouse models across 28 different tissues/cell cultures.
• Advanced Sequencing Technique: Uses the TSS-seq technique to determine exact positions of TSSs across various species' genomes.
• Integration with Transcriptomic and Epigenomic Data: Integrates RNA-seq from subcellular-fractionated RNAs, ChIP-seq for histone modifications and RNA polymerase II/transcription factor binding in cultured cell lines, and external epigenomic datasets such as the ENCODE chromatin map.
• Genetic Variation Analysis: Associates TSS information with public and original single-nucleotide variation (SNV) data to identify SNVs within regulatory regions.
• Comparative Genomics Viewer: Provides comparative genomics views to evaluate evolutionary turnover of TSSs and visualize promoter sequence information across species.

Scientific Applications:

• Transcriptional Regulation: Facilitates mapping of TSS usage and promoter architecture to study mechanisms of gene regulation.
• Developmental Biology: Enables analysis of TSS landscapes across adult and embryonic tissues and developmental stages.
• Evolutionary Biology: Supports comparative genomics analyses of promoter evolution and TSS turnover across species.
• Genetic Variation and Disease: Enables identification of SNVs in regulatory regions for studies of genetic factors linked to transcriptional dysregulation.

Methodology:

TSS positions were determined by TSS-seq and integrated with RNA-seq (subcellular-fractionated RNAs), ChIP-seq (histone modifications and RNA polymerase II/transcription factor binding), ENCODE chromatin maps, and public/original SNV datasets, with comparative genomics analyses to visualize promoter sequence conservation and TSS turnover.