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Matrix formulation of a universal microbial transcript profiling system

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3 Author(s)
Fitch, J.P. ; Lawrence Livermore Nat. Lab., California Univ., Livermore, CA, USA ; Ng, J. ; Sokhansanj, B.A.

DNA chips and microarrays are used to profile gene transcription. Unfortunately, the initial fabrication cost for a chip and the reagent costs to amplify thousands of open reading frames for a microarray are over $100K for a typical 4 Mbase bacterial genome. To avoid these expensive steps, a matrix formulation of a universal hybrid chip-microarray approach to transcript profiling is demonstrated for synthetic data. Initial considerations for application to the 4.3 Mbase bacterium Yersinia pestis are also presented. This approach can be applied to arbitrary bacteria by recalculating a matrix and pseudoinverse. This approach avoids the large upfront expenses associated with DNA chips and microarrays

Published in:

Acoustics, Speech, and Signal Processing, 2001. Proceedings. (ICASSP '01). 2001 IEEE International Conference on  (Volume:6 )

Date of Conference:

2001

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