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New Products: SoftGenetics' Floton; GenBank


SoftGenetics has developed Floton, an assembly algorithm for Ion Torrent PGM paired-end sequencing data (see story, this issue). The assembler converts Ion Torrent data into "flow call" data, which helps correct for homopolymer errors and speeds up assembly, according to the company. An application note is available via the Ion Torrent website.

GenBank release 187.0 is available here via FTP from the National Center for Biotechnology Information. It contains data as of Dec. 15.

The new release comprises approximately 135 gigabases of data from 146 million entries of non-whole genome sequencing, non-CON sequences, and around 240 gigabases from 74 million entries from whole-genome sequences. Uncompressed, the release 187.0 flatfiles require around 518 gigabases of sequence files only.

Since the previous release in August, the non-WGS/non-CON portion grew by 3.1 gigabases, increasing the number of entries by 2 million. An additional 1.6 million records were updated.

The Scan

Study Links Evolution of Longevity, Social Organization in Mammals

With the help of comparative phylogenetics and transcriptomics, researchers in Nature Communications see ties between lifespan and social organization in mammals.

Tumor Microenvironment Immune Score Provides Immunotherapy Response, Prognostic Insights

Using multiple in situ analyses and RNA sequence data, researchers in eBioMedicine have developed a score associated with immunotherapy response or survival.

CRISPR-Based Method for Finding Cancer-Associated Exosomal MicroRNAs in Blood

A team from China presents in ACS Sensors a liposome-mediated membrane fusion strategy for detecting miRNAs carried in exosomes in the blood with a CRISPR-mediated reporter system.

Drug Response Variants May Be Distinct in Somatic, Germline Samples

Based on variants from across 21 drug response genes, researchers in The Pharmacogenomics Journal suspect that tumor-only DNA sequences may miss drug response clues found in the germline.