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Downloads and Upgrades: Cufflinks 2.0.2, BioCyc 16.1, and more


The University of Maryland Center for Bioinformatics and Computational Biology has released Cufflinks 2.0.2.

This release addresses several bugs including minor fixes in the estimation routines for cross-replicate variability among other updates.

BioCyc version 16.1 is available here.

This release is a minor one in which the website and downloadable data files were updated, but not the downloadable software/database bundle. Furthermore, this release adds protein feature data from UniProt to BioCyc databases. These features describe metal ion binding sites, enzyme active sites, phosphorylation sites, and many other types of sites.

RefSeq 54 is now available from the National Center for Biotechnology Information via FTP.

The release incorporates genomic, transcript, and protein data available as of July 9, and includes 21,889,466 records, 16,393,342 proteins, 2,947,185 RNAs, and sequences from 17,605 different organisms.

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The Scan

Researchers Develop Polygenic Risk Scores for Dozens of Disease-Related Exposures

With genetic data from two large population cohorts and summary statistics from prior genome-wide association studies, researchers came up with 27 exposure polygenic risk scores in the American Journal of Human Genetics.

US Survey Data Suggests Ancestry Testing Leads Way in Awareness, Use of Genetic Testing Awareness

Although roughly three-quarters of surveyed individuals in a Genetics in Medicine study reported awareness of genetic testing, use of such tests was lower and varied with income, ancestry, and disease history.

Coral Genome Leads to Alternative Amino Acid Pathway Found in Other Non-Model Animals

An alternative cysteine biosynthesis pathway unearthed in the Acropora loripes genome subsequently turned up in sequences from non-mammalian, -nematode, or -arthropod animals, researchers report in Science Advances.

Mosquitos Genetically Modified to Prevent Malaria Spread

A gene drive approach could be used to render mosquitos unable to spread malaria, researchers report in Science Advances.