TEx-MST

TEx-MST provides tissue-specific expression information for MANE-select transcripts across normal human tissues using GTEx V9 long-read sequencing data.

Key Features:

• Unified Transcript Information: Leverages MANE (Matched Annotation from the NCBI and EMBL-EBI) select transcripts as harmonized representative transcripts for human protein-coding genes.
• Expression Profiles from GTEx V9: Utilizes the Genotype-Tissue Expression (GTEx) V9 dataset generated by long-read sequencing to quantify expression of alternatively spliced transcripts across tissues.
• Comprehensive Database: Reports 18,083 genes matched between MANE and GTEx and 13,245 MANE-select transcripts corresponding to top-ranked protein-coding transcripts in GTEx V9.
• Biotype Feature Utilization: Employs the GENCODE biotype feature and incorporates GTEx V8 and V9 data to identify the most expressed protein-coding transcripts.

Scientific Applications:

• Transcript expression profiling: Enables analysis of MANE-select transcript abundance and predominant transcript usage across normal human tissues.
• Gene regulation and alternative splicing studies: Supports investigations into gene regulation and alternative splicing by providing tissue-resolved expression of representative transcripts.
• Comparative transcriptome analyses: Facilitates comparison of transcript expression patterns between GTEx V8 and V9 datasets for protein-coding transcripts defined by GENCODE biotypes.

Methodology:

Integrates MANE and GTEx datasets using GTEx V9 long-read sequencing data and employs the GENCODE biotype feature to identify the most expressed protein-coding transcripts, reporting 18,083 matched genes and 13,245 MANE-select transcripts corresponding to top-ranked GTEx V9 transcripts.