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RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level

RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level

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A novel human protein-coding locus identified using a targeted RNA enrichment technique.

Lu Tang¹, Dongyang Xu², Lingcong Luo¹

¹School of Medicine, Huaqiao University, 668 Jimei Road, Xiamen, 361021, China.

|November 27, 2024

Summary

Researchers discovered a new human protein-coding gene, InSETG-4, which is activated by DNA damage. This finding highlights the ongoing discovery of novel genes and transcripts within the human genome.

Keywords:

DNA damage response Genomic “dark matter”Mass spectrometry Nanopore sequencing Novel gene Novel protein Rapid amplification of cDNA ends Single-cell analysis Single-molecule fluorescence in situ hybridization Targeted RNA enrichment

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A Rapid High-throughput Method for Mapping Ribonucleoproteins RNPs on Human pre-mRNA

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Published on: December 2, 2009

Area of Science:

Genomics
Molecular Biology
Human Genetics

Background:

Accurate genomic annotation is crucial for understanding human biology.
Current human gene and transcript annotation is incomplete, despite advances.
Previous research indicated the existence of unannotated functional exons and transcripts.

Purpose of the Study:

To identify novel protein-coding genes within the human genome.
To characterize newly discovered functional exons and their associated transcripts.
To investigate the role of novel genes in biological processes like DNA damage response.

Main Methods:

Targeted RNA enrichment technique to identify novel transcripts.
Bioinformatic analysis to identify protein-coding potential.
Amplification-based single-molecule fluorescence in situ hybridization (asmFISH) for expression analysis.

Main Results:

A novel protein-coding gene, InSETG-4, was identified from a previously annotated long non-coding RNA.
InSETG-4 encodes a unique human protein with no known homologs or motifs.
InSETG-4 expression is induced by DNA-damaging agents and is restricted to a small cell fraction.

Conclusions:

Undiscovered human protein-coding genes continue to be identified.
Targeted RNA enrichment is effective for discovering novel genetic information.
InSETG-4 may play a role in the DNA damage response pathway.