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copy number analysis

Protein patterns in patient-derived xenografts sometimes pointed to different alterations than those predicted from somatic mutation and expression data.

In PNAS this week: transcriptional patterns in breast cancer cell lines, study of non-CG methylation, and more.

Researchers used the approach, which analyzes somatic copy number alterations, to identify a targetable pathway, which they then blocked effectively using currently available drugs.

The results of the Harvard-led study suggest that the immune system struggles to infiltrate and attack tumors with more aneuploidy.

The method allows analysis of copy number at the individual cell level with greater coverage uniformity and more reliable detection than other approaches.

The study also found that esophageal squamous cell carcinomas resemble head and neck cancer, while esophageal adenocarcinomas are similar to gastric cancers.

The circulating tumor cell-based classifier had an overall accuracy of 89 percent for small-cell lung cancer patients, the researchers reported.

Data for hundreds of breast tumors suggested specific signatures were more closely linked to tumor-infiltrating lymphocyte activity than was mutational load. 

The findings, published last week, have prompted Belgian medical genetics centers to routinely report maternal incidental findings from NIPT.

In Nucleic Acids Research this week: tool to discover copy number variants, single-nucleus RNA sequencing study of myoblasts, and more.

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Despite differences in their migration habits, eastern and western monarch butterflies are genetically similar, according to a study in Molecular Ecology.

The UK is implementing COVID-19 testing with a 90-minute turnaround time.

The Chan Zuckerberg Biohub is working with California's health department to sequence viral samples from COVID-19 patients to trace viral introductions, according to the San Francisco Chronicle.

In PLOS this week: identification of fungal species in subcutaneous infections, sequencing of Campylobacter found in raw meat from retail stores, and more.