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I3C- HOLD

DO NOT POST – I WILL UPDATE AFTER 2-3:30PM PANEL-- KEN

SAN DIEGO, June 26 – The Interoperable Informatics Infrastructure Consortium (I3C) unveiled their first demonstration of a working protocol Tuesday at the BIO 2001 Conference.

The XML-driven format allows the exchange and analysis of sequence data across 10 different organizations’ products. I3C views the demonstration as a bridge to the next step of defining components needed for a more general open architecture.

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The demonstration began with a query issued via a LabBook interface to an IBM DiscoveryLink database server. Sequences of interest were retrieved by combining data from a National Cancer Institute dataset and the Ohio State Human Genome Data Base. The sequences were stored in XML flat-file format and then imported into the Incogen Visual Integrated Bioinformatics Environment. Analysis services, including TurboGenomics’TurboBLAST, Blackstone Technology Group’s SmartBlast, and TimeLogic’s Hidden-Markov-Model Search, were accessed via VIBE. The analysis results were stored in XML format and imported onto the LabBook Genomic XML Viewer for visualization. As a last step, the result files were submitted for additional analysis to the National Cancer Institute database.

I3C, currently with 47 participants, was proposed in February by Sun Microsystems, the Biotechnology Industry Organization, the National Cancer Institute, and several commercial bioinformatics vendors to support an industry-wide effort to develop an open platform for the life sciences. The collaboration now includes Affymetrix, AP Biotech, DoubleTwist, the European Bioinformatics Institute, Gene Logic, IBM, Incogen, Incyte, LabBook, Millenium Pharmaceuticals, the National Cancer Institute, Oracle, and the Whitehead Institute, among others.

The Scan

Just Breathing

A new analysis suggests that most Mycobacterium tuberculosis is spread by aerosols from breathing, rather than by coughing, the New York Times reports.

Just Like This One

NPR reports that the World Health Organization has hired a South African biotech company to recreate mRNA vaccine for SARS-CoV-2 that is similar to the one developed by Moderna.

Slow Start

The Wall Street Journal reports that Biogen's Alzheimer's disease treatment had revenues for July through September that totaled $300,000.

Genome Research Papers on Cancer Chromatin, Splicing in the Thymus, Circular RNAs in Cancer

In Genome Research this week: analysis of bivalent chromatin sites, RBFOX splicing factors' role in thymic epithelial cells, and more.