Skip to main content
Premium Trial:

Request an Annual Quote

This Week in Nucleic Acids Research: Dec 28, 2011

In Nucleic Acids Research this week, researchers in Germany report on four DNA-binding regions in the Tr domain on the Res subunit of the Type III restriction endonuclease EcoP15I; the endonuclease domain contains two. When modeling the Tr domain, the team found “that these multiple DNA-binding regions are located on the surface, free to interact with DNA,” it writes, adding that “interestingly, the positions of the DNA-binding regions are conserved among Type III restriction endonucleases.”

In another paper published online in advance, an international team led by investigators at the Institute for Systems Biology in Seattle presents RNASEQR, an RNA-seq analysis program. Compared with similar programs, the team says RNASEQR “yields more accurate estimates for gene expression, complete gene structures and new transcript isoforms, as well as more accurate detection of single nucleotide variants.”

The University of Ottawa’s Ilona Sylvia Skerjanc and her colleagues show that the Gli2 and MEF2C factors activate one another’s expression while enhancing cardiomyogenesis in differentiating P19 EC cells. “We propose a model whereby Gli2 and MEF2C bind each other's regulatory elements, activate each other's expression and form a protein complex that synergistically activates transcription, enhancing cardiac muscle development,” Skerjanc et al. write.

An academic research team led by scientists at the University of London says that “normalized Affymetrix expression data are biased by G-quadruplex formation.” For a specific microarray data set using the Human HG_U133A Affymetrix GeneChip and RMA normalization, the team found around 14 percent of the probes sets were directly affected by this bias, and that “these effects grow more pronounced as the number of G-stack probes in a probe set increases,” the authors write.

The Scan

NFTs for Genome Sharing

Nature News writes that non-fungible tokens could be a way for people to profit from sharing genomic data.

Wastewater Warning System

Time magazine writes that cities and college campuses are monitoring sewage for SARS-CoV-2, an approach officials hope lasts beyond COVID-19.

Networks to Boost Surveillance

Scientific American writes that new organizations and networks aim to improve the ability of developing countries to conduct SARS-CoV-2 genomic surveillance.

Genome Biology Papers on Gastric Cancer Epimutations, BUTTERFLY, GUNC Tool

In Genome Biology this week: recurrent epigenetic mutations in gastric cancer, correction tool for unique molecular identifier-based assays, and more.