By Zoe Lacroix, Terence Critchlow
Lifestyles technological know-how info integration and interoperability is without doubt one of the so much tough difficulties dealing with bioinformatics this day. within the present age of the lifestyles sciences, investigators need to interpret many varieties of data from quite a few assets: lab tools, public databases, gene expression profiles, uncooked series strains, unmarried nucleotide polymorphisms, chemical screening facts, proteomic facts, putative metabolic pathway types, and so forth. regrettably, scientists usually are not at present in a position to simply establish and entry this data due to the number of semantics, interfaces, and knowledge codecs utilized by the underlying information assets. Bioinformatics: coping with medical information tackles this problem head-on via discussing the present ways and diversity of platforms to be had to aid bioinformaticians with this more and more complicated factor. the guts of the ebook lies within the collaboration efforts of 8 specified bioinformatics groups that describe their very own distinct techniques to facts integration and interoperability. every one procedure gets its personal bankruptcy the place the lead members offer valuable perception into the explicit difficulties being addressed through the procedure, why the actual structure was once selected, and info at the system's strengths and weaknesses. In final, the editors supply vital standards for comparing those structures that bioinformatics pros will locate helpful. * offers a transparent assessment of the cutting-edge in information integration and interoperability in genomics, highlighting quite a few structures and giving perception into the strengths and weaknesses in their assorted methods. * Discusses shared vocabulary, layout matters, complexity of use situations, and the problems of moving latest information administration methods to bioinformatics platforms, which serves to attach machine and lifestyles scientists. * Written by way of the first participants of 8 respected bioinformatics platforms in academia and together with: BioKris, TAMBIS, K2, GeneExpress, P/FDM, MBM, SDSC, SRS, and DiscoveryLink.
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Extra resources for Bioinformatics: Managing Scientific Data (The Morgan Kaufmann Series in Multimedia Information and Systems)
Cfm). 1 Information-driven discovery. FIGURE or use various gene-finding computer algorithms or genome comparisons to predict the putative genes. To probe expression profiles of these genes/sequences, highdensity microarray gene expression experiments may be carried out. The analysis of expression profiles of up to 100,000 genes can be conducted experimentally, but this requires powerful computational correlation tools. Typically, the first level of experimental data stream output for a microarray experiment (laboratory information management system [LIMS] output) is a list of genes/sequences/ identification numbers and their expression profile.
We believe integration bioinformatics will be the backbone of 21st-century life sciences research. Research discovery and synthesis will be driven by the complex information arising intrinsically from biology itself and from the diversity and heterogeneity of experimental observations. The database and computing activities will need to be integrated to yield a cohesive information infrastructure underlying all of biology. 1. 1). For unknown sequences, one may conduct a database search for similar sequences 1.
In a structured database environment, the meta-data are formally included in the data schema and type definition. However, few of the biomedical databases use commercial, structured database management systems. The majority of biological data are stored and managed in collections of flat files in which the structure and meaning of the data are not well documented. Furthermore, most biological data are presented to the end users as loosely structured Web pages, even with those databases that have underlying structured database management systems (DBMS).
Bioinformatics: Managing Scientific Data (The Morgan Kaufmann Series in Multimedia Information and Systems) by Zoe Lacroix, Terence Critchlow