Skip to main content
Premium Trial:

Request an Annual Quote

Computational Tool Predicts Mammalian Messenger RNA Degradation Rates

For a paper in Genome Biology, a pair of investigators at the San Francisco-based Calico Life Sciences considers the genetic and biochemical factors influencing messenger RNA (mRNA) degradation rates in humans and mice. Using transcriptome-wide mRNA half-life patterns found in dozens of human or mouse datasets, the team used available genetic and biochemical clues to put together and train statistical models such as Saluki — a hybrid machine learning-based tool for predict mRNA half-life based on RNA splice site, codon, RNA-binding, and other annotated mRNA features. "Saluki predicts the impact of RNA sequences and genetic mutations therein on mRNA stability, in agreement with functional measurements derived from massively parallel reporter assays," the authors explain, noting that the approach was also assessed with in silico saturation mutagenesis experiments. Together, these and other results suggest that Saluki "succinctly captures many of the known determinants of mRNA half-life and can be rapidly deployed to predict the functional consequences of arbitrary mutations in the transcriptome."

The Scan

Polygenic Risk Score to Predict Preeclampsia, Gestational Hypertension in Pregnant Women

Researchers in Nature Medicine provide new mechanistic insights into the development of hypertensive disorders of pregnancy, which may help develop therapeutics.

New Oral Nanomedicine Strategy Targets Gut-Brain Axis to Treat IBD

A new paper in Science Advances describes a platform to design polyphenol-armored oral medicines that are effective at treating inflammatory bowel disease.

Phylogenetic Data Enables New Floristic Map

Researchers in Nature Communications use angiosperm phylogenetic data to refine the floristic regions of the world.

Machine Learning Helps ID Molecular Mechanisms of Pancreatic Islet Beta Cell Subtypes in Type 2 Diabetes

The approach helps overcome limitations of previous studies that had investigated the molecular mechanisms of pancreatic islet beta cells, the authors write in their Nature Genetics paper.