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Downloads and Upgrades: BioCyc 16.5, inForm, MacVector 12.7, and more

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BioCyc 16.5 is available here.

This release includes updates to the BioCyc website, including new additions to the EcoCyc and MetaCyc databases, downloadable data files, and a downloadable Pathway Tools software/database bundle.


Golden Helix has released a new RNA-seq analysis package for its SNP & Variation Suite toolkit.

This latest addition provides capabilities for RNA sequence data quality assurance, analysis, and visualization.


Genes & Genomics has launched a cloud-based Next Generation Sequence data analysis service.

The company analyzes genome, exome, transcriptome, and metagenomics data and offers de novo assembly services. It also provides customers with data storage and management facilities.


PerkinElmer has released a new version of inForm, its software product for automated image analysis in oncology studies.

The software is available in two packages: inForm Tissue Finder and inForm Cell Analysis.

Tissue Finder helps users find relationships between multiplexed markers in disease studies. It is also used for high-throughput imaging when extracting proteomic and morphometric information from intact tissue sections. It relies on a patented algorithm that automates the analysis of images of tissue samples and provides improved accuracy in scoring and quantifying biomarker expression levels in tissues.

The inForm Cell Analysis software is designed for pathologists and oncologists who want the power of inForm Tissue Finder, but require lower throughput.


MacVector has released version 12.7 of its MacVector software, which provides tools for sequence editing, primer design, internet database searching, protein analysis, sequence confirmation, multiple sequence alignment, phylogenetic reconstruction, coding region analysis, and other functions.

The release includes a new Cloning Clipboard tool that simplifies the creation of new DNA constructs and lets users join molecules together in a drag-and-drop interface. The tool designs and documents all subcloning operations from simple digests to complex multi-fragment procedures. It also annotates sequences with the history of every ligation event, showing the enzymes used, the date, and any end modifications. Other updates include performance enhancements to the Dot Plot tool and the Align To Reference editor.


A new release of UniProt GO Annotation, a project run by the UniProt group that provides assignments of gene products to the Gene Ontology, is available via ftp.


The Genome Browser group at the University of California, Santa Cruz, has released a new genes track for the mouse genome browser.

The new release has 59,121 transcripts, compared with 55,419 in the previous version. Also, the total number of canonical genes has increased from 28,661 to 31,227.


Instem has released a new version of OmniViz, its data mining and visual analytics solution.

Version 6.1 includes support for Windows 7 32-bit and 64-bit operating systems, and offers access to more memory for processing large datasets.


SoftGenetics has released a new version of its NextGENe software.

The release includes a new module for copy number variation analysis, customized reporting capabilities, and other improvements.


The Scan

J&J Booster Support

A US Food and Drug Administration advisory panel has voted to support a booster dose of Johnson & Johnson's SARS-CoV-2 vaccine, according to the Los Angeles Times.

To Keep the Cases Moving

The president of the UK Royal College of Pathologists tells the Financial Times that more investment is needed to tackle a backlog of cases.

NAS Expels Archaeologist

Science reports Luis Jaime Castillo Butters' expulsion is the first of an international member from the US National Academy of Sciences.

PLOS Papers on Angelman Syndrome-Like Cases, Salmonella Paratyphi A, SARS-CoV-2 in Brazil

In PLOS this week: exome sequencing analysis of Angelman syndrome-like cases, genetic epidemiology of Salmonella Paratyphi A, and more.