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Downloads and Upgrades Sep 9, 2011

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This week, Rockefeller University Press and Glencoe Software announced a new version of the Journal of Cell Biology DataViewer, a tool that hosts supplemental image data from genome-wide high-content screens published in the journal.

The JCB DataViewer now lets authors archive and share HCS data and allows the scientific community to interactively browse and download original screen data to their computers for more detailed analysis.

The JCB DataViewer is based on open source software built by the Open Microscopy Environment.


The Center for Bioinformatics and Computational Biology at the University of Maryland has released TopHat 1.3.2 and Cufflinks 1.1.0.

The latest release of TopHat includes several bug fixes and improvements, while the Cufflinks release addresses several issues, such as the addition of a more sophisticated check for sufficient sequencing depth prior to testing for differences.


Cytoscape 2.8.2 is now available here.

The release includes improvements to the tool's memory allocation capability and CytoPanels as well as a new gradient editor and other updates.


The Scan

Expanded Genetic Testing Uncovers Hereditary Cancer Risk in Significant Subset of Cancer Patients

In Genome Medicine, researchers found pathogenic or likely pathogenic hereditary cancer risk variants in close to 17 percent of the 17,523 patients profiled with expanded germline genetic testing.

Mitochondrial Replacement Therapy Embryos Appear Largely Normal in Single-Cell 'Omics Analyses

Embryos produced with spindle transfer-based mitochondrial replacement had delayed demethylation, but typical aneuploidy and transcriptome features in a PLOS Biology study.

Cancer Patients Report Quality of Life Benefits for Immune Checkpoint Inhibitors

Immune checkpoint inhibitor immunotherapy was linked in JAMA Network Open to enhanced quality of life compared to other treatment types in cancer patients.

Researchers Compare WGS, Exome Sequencing-Based Mendelian Disease Diagnosis

Investigators find a diagnostic edge for whole-genome sequencing, while highlighting the cost advantages and improving diagnostic rate of exome sequencing in EJHG.