Long-read RNA sequencing identifies region- and sex-specific C57BL/6J mouse brain mRNA isoform expression and usage DOI Creative Commons
Emma F. Jones, Timothy C. Howton, Victoria L. Flanary

и другие.

Molecular Brain, Год журнала: 2024, Номер 17(1)

Опубликована: Июнь 20, 2024

Abstract Alternative splicing (AS) contributes to the biological heterogeneity between species, sexes, tissues, and cell types. Many diseases are either caused by alterations in AS or AS. Therefore, measuring accurately efficiently is critical for assessing molecular phenotypes, including those associated with disease. Long-read sequencing enables more accurate quantification of differentially spliced isoform expression than short-read approaches, third-generation platforms facilitate high-throughput experiments. To assess differences across cerebellum, cortex, hippocampus, striatum sex, we generated analyzed Oxford Nanopore Technologies (ONT) long-read RNA (lrRNA-Seq) C57BL/6J mouse brain cDNA libraries. From > 85 million reads that passed quality control metrics, calculated differential gene (DGE), transcript (DTE), usage (DTU) regions sex. We found significant DGE, DTE, DTU cerebellum had most compared other three regions. Additionally, region-specific sex cortex no hippocampus. also report on two distinct patterns observed, sex-divergent sex-specific, could potentially help explain prevalence prognosis various neurological psychiatric disorders future studies. Finally, built a Shiny web application researchers explore data further. Our study provides resource community; it underscores importance utility better understand brain.

Язык: Английский

Long-read RNA sequencing identifies region- and sex-specific C57BL/6J mouse brain mRNA isoform expression and usage DOI Creative Commons
Emma F. Jones, Timothy C. Howton, Victoria L. Flanary

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Янв. 11, 2024

Alternative splicing (AS) contributes to the biological heterogeneity between species, sexes, tissues, and cell types. Many diseases are either caused by alterations in AS or AS. Therefore, measuring accurately efficiently is critical for assessing molecular phenotypes, including those associated with disease. Long-read sequencing enables more accurate quantification of differentially spliced isoform expression than short-read approaches, third-generation platforms facilitate high-throughput experiments. To assess differences across cerebellum, cortex, hippocampus, striatum sex, we generated analyzed Oxford Nanopore Technologies (ONT) long-read RNA (lrRNA-Seq) C57BL/6J mouse brain cDNA libraries. From >85 million reads that passed quality control metrics, calculated differential gene (DGE), transcript (DTE), usage (DTU) regions sex. We found significant DGE, DTE, DTU cerebellum had most compared other three regions. Additionally, region-specific sex cortex no hippocampus. also report on two distinct patterns observed, sex-divergent sex-specific, could potentially help explain prevalence prognosis various neurological psychiatric disorders future studies. Finally, built a Shiny web application researchers explore data further. Our study provides resource community; it underscores importance utility better understand brain.

Язык: Английский

Процитировано

0
Long-read RNA sequencing identifies region- and sex-specific C57BL/6J mouse brain mRNA isoform expression and usage DOI Creative Commons
Emma F. Jones, Timothy C. Howton, Victoria L. Flanary

и другие.

Molecular Brain, Год журнала: 2024, Номер 17(1)

Опубликована: Июнь 20, 2024

Abstract Alternative splicing (AS) contributes to the biological heterogeneity between species, sexes, tissues, and cell types. Many diseases are either caused by alterations in AS or AS. Therefore, measuring accurately efficiently is critical for assessing molecular phenotypes, including those associated with disease. Long-read sequencing enables more accurate quantification of differentially spliced isoform expression than short-read approaches, third-generation platforms facilitate high-throughput experiments. To assess differences across cerebellum, cortex, hippocampus, striatum sex, we generated analyzed Oxford Nanopore Technologies (ONT) long-read RNA (lrRNA-Seq) C57BL/6J mouse brain cDNA libraries. From > 85 million reads that passed quality control metrics, calculated differential gene (DGE), transcript (DTE), usage (DTU) regions sex. We found significant DGE, DTE, DTU cerebellum had most compared other three regions. Additionally, region-specific sex cortex no hippocampus. also report on two distinct patterns observed, sex-divergent sex-specific, could potentially help explain prevalence prognosis various neurological psychiatric disorders future studies. Finally, built a Shiny web application researchers explore data further. Our study provides resource community; it underscores importance utility better understand brain.

Язык: Английский

Процитировано

0