TY - GEN
T1 - DNA microarray image intensity extraction using eigenspots
AU - Tsaftaris, Sotirios A.
AU - Ahuja, Ramandeep
AU - Shiell, Derek
AU - Katsaggelos, Aggelos K.
PY - 2006
Y1 - 2006
N2 - DNA microarrays are commonly used in the rapid analysis of gene expression in organisms. Image analysis is used to measure the average intensity of circular image areas (spots), which correspond to the level of expression of the genes. A crucial aspect of image analysis is the estimation of the background noise. Currently, background subtraction algorithms are used to estimate the local background noise and subtract it from the signal. In this paper we use Principal Component Analysis (PCA) to de-correlate the signal from the noise, by projecting each spot on the space of eigenvectors, which we term eigenspots. PCA is well suited for such application due to the structural nature of the images. To compare the proposed method with other background estimation methods we use the industry standard signal-to-noise metric xdev.
AB - DNA microarrays are commonly used in the rapid analysis of gene expression in organisms. Image analysis is used to measure the average intensity of circular image areas (spots), which correspond to the level of expression of the genes. A crucial aspect of image analysis is the estimation of the background noise. Currently, background subtraction algorithms are used to estimate the local background noise and subtract it from the signal. In this paper we use Principal Component Analysis (PCA) to de-correlate the signal from the noise, by projecting each spot on the space of eigenvectors, which we term eigenspots. PCA is well suited for such application due to the structural nature of the images. To compare the proposed method with other background estimation methods we use the industry standard signal-to-noise metric xdev.
KW - Biochip
KW - DNA microarray
KW - Eigenspaces
KW - Noise
KW - Segmentation
UR - http://www.scopus.com/inward/record.url?scp=48149095844&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=48149095844&partnerID=8YFLogxK
U2 - 10.1109/ICIP.2007.4379572
DO - 10.1109/ICIP.2007.4379572
M3 - Conference contribution
AN - SCOPUS:48149095844
SN - 1424414377
SN - 9781424414376
T3 - Proceedings - International Conference on Image Processing, ICIP
SP - VI265-VI268
BT - 2007 IEEE International Conference on Image Processing, ICIP 2007 Proceedings
T2 - 14th IEEE International Conference on Image Processing, ICIP 2007
Y2 - 16 September 2007 through 19 September 2007
ER -