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Sequential modeling for identifying CpG island locations in human genome

Publication ,  Journal Article
Dasgupta, N; Lin, S; Carin, L
Published in: IEEE Signal Processing Letters
December 1, 2002

We consider several sequential processing algorithms for identifying genes in human DNA, based on detecting CpG ("C proceeds G") islands. The algorithms are designed to capture the underlying statistical structure in a DNA sequence. Sequential processing using a Markov model and a hidden Markov model are shown to identify most CpG islands in annotated (marked) DNA subsequences available from publicly available DNA datasets. We also consider a wavelet-based hidden Markov tree (HMT). In the context of the HMT, we address design of adaptive wavelets matched to CpG islands, this accomplished via lifting and genetic-algorithm optimization.

Duke Scholars

Published In

IEEE Signal Processing Letters

DOI

ISSN

1070-9908

Publication Date

December 1, 2002

Volume

9

Issue

12

Start / End Page

407 / 409

Related Subject Headings

  • Networking & Telecommunications
  • 4603 Computer vision and multimedia computation
  • 4009 Electronics, sensors and digital hardware
  • 4006 Communications engineering
  • 1005 Communications Technologies
  • 0906 Electrical and Electronic Engineering
  • 0801 Artificial Intelligence and Image Processing
 

Citation

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Dasgupta, N., Lin, S., & Carin, L. (2002). Sequential modeling for identifying CpG island locations in human genome. IEEE Signal Processing Letters, 9(12), 407–409. https://doi.org/10.1109/LSP.2002.806062
Dasgupta, N., S. Lin, and L. Carin. “Sequential modeling for identifying CpG island locations in human genome.” IEEE Signal Processing Letters 9, no. 12 (December 1, 2002): 407–9. https://doi.org/10.1109/LSP.2002.806062.
Dasgupta N, Lin S, Carin L. Sequential modeling for identifying CpG island locations in human genome. IEEE Signal Processing Letters. 2002 Dec 1;9(12):407–9.
Dasgupta, N., et al. “Sequential modeling for identifying CpG island locations in human genome.” IEEE Signal Processing Letters, vol. 9, no. 12, Dec. 2002, pp. 407–09. Scopus, doi:10.1109/LSP.2002.806062.
Dasgupta N, Lin S, Carin L. Sequential modeling for identifying CpG island locations in human genome. IEEE Signal Processing Letters. 2002 Dec 1;9(12):407–409.

Published In

IEEE Signal Processing Letters

DOI

ISSN

1070-9908

Publication Date

December 1, 2002

Volume

9

Issue

12

Start / End Page

407 / 409

Related Subject Headings

  • Networking & Telecommunications
  • 4603 Computer vision and multimedia computation
  • 4009 Electronics, sensors and digital hardware
  • 4006 Communications engineering
  • 1005 Communications Technologies
  • 0906 Electrical and Electronic Engineering
  • 0801 Artificial Intelligence and Image Processing