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Jumping Off

At his Not Invented Here blog, Harvard School of Public Health's Oliver Hofmann discusses the Broad Institute's David Jaffe's keynote talk at Beyond the Genome 2011's Genome Informatics Pre-Meeting held in Washington, DC, this week. Hofmann summarizes Jaffe's key points on genome assembly challenges during this time of "rapid technological change." According to Hofmann, Jaffe stressed that toward the end-goal of improved linear assemblies, changes to format requirements are needed. For example, assemblies should encompass an "inner layer which includes annotation [and] local graphs" as well as an "outer layer that contains information on the global structure — e.g., information about perfect repeats that cannot be resolved." Hofmann says Jaffe noted that gap size estimation continues to be a challenge, one that may necessitate "local re-assemblies around problem spots or inconsistencies" going forward. Overall, Hofmann summarizes Jaffe's talk, saying that the "potential of current data not 'maxed out' yet." The data, Hofmann writes, "can be traced and improved by better algorithms," though he adds that "part of the solution has to come through a better representation of genomes."

The Scan

Alzheimer's Risk Gene Among Women

CNN reports that researchers have found that variants in MGMT contribute to Alzheimer's disease risk among women but not men.

Still Hanging Around

The Guardian writes that persistent pockets of SARS-CoV-2 in the body could contribute to long COVID.

Through a Little Spit

Enteric viruses like norovirus may also be transmitted through saliva, not just the fecal-oral route, according to New Scientist.

Nature Papers Present Method to Detect Full Transcriptome, Viruses Infecting Asgard Archaea, More

In Nature this week: VASA-seq approach to detect full transcriptome, analysis of viruses infecting Asgard archaea, and more.