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DS Accord for Excel, BioMed Central, SCWRL3.0, Annaffy 1.0, GOA, Rat Genome Sequencing Consortium

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Accelrys has launched its first Discovery Studio cheminformatics product, DS Accord for Excel. Features include a new predictive ADME (absorption, distribution, metabolism, and excretion) add-on with models for blood-brain-barrier permeation, human intestinal absorption, aqueous solubility, and serum protein binding.


Open access publisher BioMed Central is making its corpus of over 2,400 research articles available for download by FTP as a single zip file of XML content to facilitate data mining. The file will be updated with newly published articles every night. Further details are available at http://www.biomedcentral.com/info/about/datamining/.


SCWRL3.0, a program for predicting protein side-chain conformations for a given backbone, is now available from the Fox Chase Cancer Center at http://dunbrack.fccc.edu/scwrl3.


The NASA Center for Astrobioinformatics has released Annaffy 1.0, a set of compiled metadata for Affymetrix probe IDs, at http://genome.nasa.gov/index.php?page=downloads/annaffy/index.html.


A new release of GOA (GO [email protected]), a project that assigns gene products to the Gene Ontology,
is available at ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/. The data includes the 10th release of all GO annotations that exist in Swiss-Prot and Trembl and the 12th release of annotation for the Swiss-Prot/Trembl/Ensembl non-redundant human proteome set.


The UCSC Genome Bioinformatics Group has released a browser and BLAT server for the v. 3.1 (June 2003) rat genome assembly from the Rat Genome Sequencing Consortium at http://genome.ucsc.edu. The assembly is a minor update to the 3.0 release.


Version 0.8.4 of the Sockeye 3D genome browser is now available from the Michael Smith Genome Science Center in British Columbia at http://www.bcgsc.ca/gc/bomge/ sockeye/download.


Due to a new five-year grant from the NSF, Wayne State University is making its Onto-Tools bioinformatics suite available free of charge to all academic users and non-profit organizations at http://vortex.cs.wayne.edu/. Commercial organizations wishing to use the software, previously available through the firm Open Channel, should contact the Wayne State development team. Non-profit organizations that have already purchased a license for Onto-Tools will be refunded.

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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.