Gridding the spot centers of microarray images

Jinn Ho*, Wen Liang Hwang, Henry Horn Shing Lu, D. T. Lee

*Corresponding author for this work

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

Abstract

We use an optimization technique to accurately locate a distorted grid structure in a microarray image. By assuming that spot centers deviate smoothly from a checkerboard grid structure, we show that the process of gridding spot centers can be formulated as a constrained optimization problem. The constraint is equal to the variations of the transform parameter. We demonstrate the accuracy of our algorithm on two sets of microarray images. One set consists of some images from the Stanford Microarray Database; we compare our centers with those annotated in the Database. The other set consists of oligonucleotide images. We compare our results with those obtained by GenePix Pro 5.0. Our experiments were performed completely automatically.

Original languageEnglish
Title of host publication13th European Signal Processing Conference, EUSIPCO 2005
Pages596-599
Number of pages4
StatePublished - 1 Dec 2005
Event13th European Signal Processing Conference, EUSIPCO 2005 - Antalya, Turkey
Duration: 4 Sep 20058 Sep 2005

Publication series

Name13th European Signal Processing Conference, EUSIPCO 2005

Conference

Conference13th European Signal Processing Conference, EUSIPCO 2005
CountryTurkey
CityAntalya
Period4/09/058/09/05

Fingerprint Dive into the research topics of 'Gridding the spot centers of microarray images'. Together they form a unique fingerprint.

  • Cite this

    Ho, J., Hwang, W. L., Lu, H. H. S., & Lee, D. T. (2005). Gridding the spot centers of microarray images. In 13th European Signal Processing Conference, EUSIPCO 2005 (pp. 596-599). (13th European Signal Processing Conference, EUSIPCO 2005).