Lossless compression of DNA Microarray images with inversion coder

Basar Koc, Ziya Arnavut, Huseyin Kocak

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Citation (Scopus)

Abstract

DNA Microarray images are used to identify and monitor gene activity, or expression. In a single experiment, a large number of microarray images may be produced. Storage and archiving of these images are an important problem for researchers. Since microarray images can have a wide variety of nearly random patterns with no discernible structures, general entropy coders, e.g. Bzip2, or generic image compressors, e.g. JPEG-LS, do not perform well. In this work, we investigate performance of the inversion coding technique in lossless compression of DNA microarray images. We show that inversion coding outperforms commonly used entropy coders and image compressors.

Original languageEnglish (US)
Title of host publication2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages186-189
Number of pages4
ISBN (Print)9781479969401
DOIs
StatePublished - Feb 2 2014
Event2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014 - Charlotte, United States
Duration: Dec 15 2014Dec 17 2014

Other

Other2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014
CountryUnited States
CityCharlotte
Period12/15/1412/17/14

Fingerprint

Microarrays
DNA
Compressors
Entropy
Genes
Experiments

Keywords

  • Block-sorting
  • BWIC
  • DNA Microarray Images
  • Inversion Ranks
  • Lossless Compression

ASJC Scopus subject areas

  • Computer Networks and Communications
  • Electrical and Electronic Engineering
  • Electronic, Optical and Magnetic Materials

Cite this

Koc, B., Arnavut, Z., & Kocak, H. (2014). Lossless compression of DNA Microarray images with inversion coder. In 2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014 (pp. 186-189). [7029387] Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/HONET.2014.7029387

Lossless compression of DNA Microarray images with inversion coder. / Koc, Basar; Arnavut, Ziya; Kocak, Huseyin.

2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014. Institute of Electrical and Electronics Engineers Inc., 2014. p. 186-189 7029387.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Koc, B, Arnavut, Z & Kocak, H 2014, Lossless compression of DNA Microarray images with inversion coder. in 2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014., 7029387, Institute of Electrical and Electronics Engineers Inc., pp. 186-189, 2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014, Charlotte, United States, 12/15/14. https://doi.org/10.1109/HONET.2014.7029387
Koc B, Arnavut Z, Kocak H. Lossless compression of DNA Microarray images with inversion coder. In 2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014. Institute of Electrical and Electronics Engineers Inc. 2014. p. 186-189. 7029387 https://doi.org/10.1109/HONET.2014.7029387
Koc, Basar ; Arnavut, Ziya ; Kocak, Huseyin. / Lossless compression of DNA Microarray images with inversion coder. 2014 11th Annual High Capacity Optical Networks and Emerging/Enabling Technologies (Photonics for Energy), HONET-PfE 2014. Institute of Electrical and Electronics Engineers Inc., 2014. pp. 186-189
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