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Nature Papers Present Method to Uncover Differential RNA Modifications, Neutrophils in Innate Immune Response

A new method for identifying differential RNA modifications is reported in Nature Biotechnology this week. Aiming to overcome the technical challenges that have faced the quantification of RNA modifications, a team led by scientists from the Genome Institute of Singapore developed xPore, a computational method and statistical framework that defines measures of significance and effect size for differential RNA modifications from nanopore direct RNA-seq data. Unlike other approaches, xPore does not require an unmodified control sample, and it enables simultaneous profiling of differential transcript expression and modification across conditions without any additional experiments. "With direct RNA-seq becoming widely available, we propose that differential modification analysis can complement differential expression analysis and provide insights into the complex landscape of RNA modifications and their roles in diseases," the researchers write.

A multi-omic analysis of mouse neutrophils is published in Nature Aging this week, offering new insights into how these key players in the innate immune response are regulated over time and between the sexes. Because neutrophils are so short-lived, their impact of aging on neutrophil biology, especially as a function of biological sex, remains poorly understood. To investigate, a group led by University of Southern California researchers generated a resource covering transcriptome, metabolome, and lipidome profiling of primary bone-marrow neutrophils from young and old female and male mice. They uncover widespread regulation of neutrophil omics landscapes with aging and biological sex including transcriptional regulation of chromatin-related pathways. They also use the resource to predict sex differences in serum levels of neutrophil elastase in control and sepsis-like conditions.

The Scan

Study Examines Insights Gained by Adjunct Trio RNA Sequencing in Complex Pediatric Disease Cases

Researchers in AJHG explore the diagnostic utility of adding parent-child RNA-seq to genome sequencing in dozens of families with complex, undiagnosed genetic disease.

Clinical Genomic Lab Survey Looks at Workforce Needs

Investigators use a survey approach in Genetics in Medicine Open to assess technologist applications, retention, and workforce gaps at molecular genetics and clinical cytogenetics labs in the US.

Study Considers Gene Regulatory Features Available by Sequence-Based Modeling

Investigators in Genome Biology set sequence-based models against observational and perturbation assay data, finding distal enhancer models lag behind promoter predictions.

Genetic Testing Approach Explores Origins of Blastocyst Aneuploidy

Investigators in AJHG distinguish between aneuploidy events related to meiotic missegregation in haploid cells and those involving post-zygotic mitotic errors and mosaicism.