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Downloads and Upgrades: Entrez Starter kit, Accelrys Capture, Scripps Wellderly Genome Resource, UCSC Genome Browser


Kepler Biocomputing has released Entrez Starter kit, a collection of scripts for creating a local MySQL database of selected core annotations from Entrez Gene, Homologene, and National Center for Biotechnology Information Taxonomy.

Researchers from Drexel University have released Pdbcircleplot, a new visualization method for protein structures.

According to the developers, the program displays residue contacts as links between residues shown along a circle, lets users display additional data tracks using a predefined set of residue properties such as conservation, solvent accessibility, and more.

Accelrys has launched Accelrys Capture, an application for mobile devices that facilitates rapid, paperless recording at the laboratory bench.

According to the company, the solution allows scientists to work more intuitively and efficiently with laboratory informatics software like the Accelrys Electronic Laboratory Notebook. It has an easy-to-use interface through which scientists enter information, view procedures, and capture data from laboratory instrumentation among other capabilities. It is currently available as an addition to Accelrys ELN but will be extended to other laboratory informatics products in the company's portfolio.

The Scripps Translational Science Institute has made genomic data from the Wellderly Study publicly available.

The Scripps Wellderly Genome Resource contains whole genome sequences from the 454 participants in the Wellderly Study, an ongoing STSI research project focused on identifying genes associated with lifelong health.

The developers of the UCSC Genome Browser have released an early version of the browser for the new GRCh38 human genome assembly. The releases includes alternate sequences for select variant regions, a new method of representing centromeres, corrections to erroneous bases and misassembled regions, and more.

The Scan

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.

Breast Cancer Risk Gene Candidates Found by Multi-Ancestry Low-Frequency Variant Analysis

Researchers narrowed in on new and known risk gene candidates with variant profiles for almost 83,500 individuals with breast cancer and 59,199 unaffected controls in Genome Medicine.

Health-Related Quality of Life Gets Boost After Microbiome-Based Treatment for Recurrent C. Diff

A secondary analysis of Phase 3 clinical trial data in JAMA Network Open suggests an investigational oral microbiome-based drug may lead to enhanced quality of life measures.

Study Follows Consequences of Early Confirmatory Trials for Accelerated Approval Indications

Time to traditional approval or withdrawal was shorter when confirmatory trials started prior to accelerated approval, though overall regulatory outcomes remained similar, a JAMA study finds.