IBM’s Genomic Messaging System

IBM has a new technology called the Genomic Messaging System.  Barry Robson, a research scientist at IBM’s Watson Research Lab, is the lead author of a recent paper on GMS, published in the Journal of Proteome Research.  Here is snippet from Robson’s paper ($):

…Genomic Messaging System (GMS)…may be considered as a proposed specification for an approach with an emphasis on a specific language for embedding supporting information and management functions in streams of DNA data. Naturally, the details may evolve, but the concept of adding human and computer-generated content (such as annotation) into the DNA sequences, in a more general and powerful way, appears to be a useful one. The proof-of-concept code employs Perl 5 with capabilities for XML management although, as described below, the approach is not confined to XML-based records. Components have been also been recently encoded in Java. The description also includes the Clinical Laboratory Messaging System (CLaMS) as a straightforward modification in which the background genomic default usage is switched off so that it occurs at same rank level as other clinical data. GMS represents technology involved in the domain of information management of patient genomic information and associated clinical information. In particular, the current implementation is concerned with the compression, encryption, and transmission aspects of clinical and genomic data, including bringing data together such as the clinical record and the patient DNA results from the sequencing laboratory. The form of information transmitted is versatile and is capable of storing and transmitting an entire Integrated Medical Record (IMR)."

IBM’s IMR, SHAMAN, and GMS sites.

The GMS paper:
Barry Robson and Richard Mushlin. "Genomic Messaging System and DNA Mark-Up Language for Information-Based Personalized Medicine with Clinical and Proteome Research Applications" J. Proteome Res. ASAP Web Release Date: 22-Jul-2004

By the way, IBM Healthcare and Life Sciences just release another newsletter.  Although I can’t find any version of it online, you can get many if not all of the same papers here.


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