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Downloads & Upgrades: Ingenuity iReport; BioJava; NPG's Linked Data Platform


Ingenuity has optimized its Ingenuity iReport to support Life Technologies' TaqMan gene expression assays.

Ingenuity said that lReport has been optimized for several TaqMan gene expression assay formats, including TaqMan Array Card and OpenArray file types. The combined resource is expected to provide a faster and more comprehensive understanding of pathways, processes, and diseases relevant to gene expression results, the company said.

BioJava 3.0.3 is available here.

The release includes improvements to the web service module; support for SIFTS-PDB to UniProt mapping; and improved support for working with external protein domain definitions among other features.

BioJava Legacy 1.8.2 is also available.

The release incorporates several new features, including streaming and low-level parsers for the FASTQ package and bug fixes.

BioJava Legacy is a continuation of the version 1.x releases of BioJava.

Nature Publishing Group is providing access to its publication data via a semantic web system dubbed NPG's Linked Data platform.

The platform includes more than 20 million resource description framework statements, including primary metadata for more than 450,000 articles published by NPG. The datasets include basic citation information — such as title, author, and publication date — as well as NPG-specific ontologies.

It lets users query, explore, and extract data and relationships about articles, contributors, publications, and subjects. Users can run web-standard SPARQL Protocol and RDF Query Language queries to obtain and manipulate data stored as RDF. The platform also uses standard vocabularies such as Dublin Core, FOAF, PRISM, BIBO, and OWL; and its data is integrated with existing public datasets such as CrossRef and PubMed.

The Scan

Study Reveals Details of SARS-CoV-2 Spread Across Brazil

A genomic analysis in Nature Microbiology explores how SARS-CoV-2 spread into, across, and from Brazil.

New Study Highlights Utility of Mutation Testing in Anaplastic Thyroid Cancer

Genetic mutations in BRAF and RAS are associated with patient outcomes in anaplastic thyroid carcinoma, a new JCO Precision Oncology study reports.

Study Points to Increased Risk of Dangerous Blood Clots in COVID-19 Patients

An analysis in JAMA Internal Medicine finds that even mild COVID-19 increases risk of venous thromboembolism.

Y Chromosome Study Reveals Details on Timing of Human Settlement in Americas

A Y chromosome-based analysis suggests South America may have first been settled more than 18,000 years ago, according to a new PLOS One study.