Estimation of correlation between various types of pixel intensities in a single spot

Kalesh M. Karun, V. S. Binu, N. Sreekumaran Nair, K. Manjunatha Prasad, Kala M. Karun, Keerthana Prasad, K. M. Girisha

Research output: Contribution to journalArticle

Abstract

In complementary DNA (cDNA) microarray experiments, the measurement of interest is signal intensity ratio of spots. Each spot have four types of pixel intensities namely red foreground, green foreground, red background and green background. The uncertainty associated with the intensity ratio of a spot depends on the correlations between intensities of these pixels. In this article, we propose a method to estimate correlations between various types of pixel intensities within a spot using a modied form of Moran's I spatial autocorrelation. We estimate these correlations for eight selected spots from image les downloaded from the Gene Expression Omnibus (GEO) database. These estimated correlations are used for ending the uncertainty associated with each of the selected eight spots using the theory of error propagation. We observed that the estimated uncertainty associated with intensity ratio of a spot is less if we consider the correlation between various pixel intensities compared to assuming zero correlation.

Original languageEnglish
Pages (from-to)58-67
Number of pages10
JournalElectronic Journal of Applied Statistical Analysis
Volume9
Issue number1
DOIs
Publication statusPublished - 2016

Fingerprint

Pixel
Pixels
Uncertainty
Microarrays
Autocorrelation
Gene expression
DNA
Zero correlation
Spatial Autocorrelation
DNA Microarray
Error Propagation
Estimate
Gene Expression
Experiments
Experiment
Background

All Science Journal Classification (ASJC) codes

  • Statistics and Probability
  • Modelling and Simulation

Cite this

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title = "Estimation of correlation between various types of pixel intensities in a single spot",
abstract = "In complementary DNA (cDNA) microarray experiments, the measurement of interest is signal intensity ratio of spots. Each spot have four types of pixel intensities namely red foreground, green foreground, red background and green background. The uncertainty associated with the intensity ratio of a spot depends on the correlations between intensities of these pixels. In this article, we propose a method to estimate correlations between various types of pixel intensities within a spot using a modied form of Moran's I spatial autocorrelation. We estimate these correlations for eight selected spots from image les downloaded from the Gene Expression Omnibus (GEO) database. These estimated correlations are used for ending the uncertainty associated with each of the selected eight spots using the theory of error propagation. We observed that the estimated uncertainty associated with intensity ratio of a spot is less if we consider the correlation between various pixel intensities compared to assuming zero correlation.",
author = "Karun, {Kalesh M.} and Binu, {V. S.} and {Sreekumaran Nair}, N. and {Manjunatha Prasad}, K. and Karun, {Kala M.} and Keerthana Prasad and Girisha, {K. M.}",
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language = "English",
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journal = "Electronic Journal of Applied Statistical Analysis",
issn = "2070-5948",
publisher = "ESE - Salento University Publishing",
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Estimation of correlation between various types of pixel intensities in a single spot. / Karun, Kalesh M.; Binu, V. S.; Sreekumaran Nair, N.; Manjunatha Prasad, K.; Karun, Kala M.; Prasad, Keerthana; Girisha, K. M.

In: Electronic Journal of Applied Statistical Analysis, Vol. 9, No. 1, 2016, p. 58-67.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Estimation of correlation between various types of pixel intensities in a single spot

AU - Karun, Kalesh M.

AU - Binu, V. S.

AU - Sreekumaran Nair, N.

AU - Manjunatha Prasad, K.

AU - Karun, Kala M.

AU - Prasad, Keerthana

AU - Girisha, K. M.

PY - 2016

Y1 - 2016

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AB - In complementary DNA (cDNA) microarray experiments, the measurement of interest is signal intensity ratio of spots. Each spot have four types of pixel intensities namely red foreground, green foreground, red background and green background. The uncertainty associated with the intensity ratio of a spot depends on the correlations between intensities of these pixels. In this article, we propose a method to estimate correlations between various types of pixel intensities within a spot using a modied form of Moran's I spatial autocorrelation. We estimate these correlations for eight selected spots from image les downloaded from the Gene Expression Omnibus (GEO) database. These estimated correlations are used for ending the uncertainty associated with each of the selected eight spots using the theory of error propagation. We observed that the estimated uncertainty associated with intensity ratio of a spot is less if we consider the correlation between various pixel intensities compared to assuming zero correlation.

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