Effective quantification of gene expression levels in microarray images using a spot-adaptive compound clustering - enhancement - segmentation scheme

dc.contributor.author	Δασκαλάκης, Αντώνης	el
dc.contributor.author	Κάβουρας, Διονύσης Α.	el
dc.contributor.author	Μπουγιούκος, Παναγιώτης	el
dc.contributor.author	Κωστόπουλος, Σπυρίδων	el
dc.contributor.author	Γεωργιάδης, Παντελής	el
dc.date.accessioned	2015-05-13T07:06:54Z
dc.date.available	2015-05-13T07:06:54Z
dc.date.issued	2015-05-13
dc.identifier.uri	http://hdl.handle.net/11400/10279
dc.rights	Αναφορά Δημιουργού-Μη Εμπορική Χρήση-Όχι Παράγωγα Έργα 3.0 Ηνωμένες Πολιτείες	*
dc.rights.uri	http://creativecommons.org/licenses/by-nc-nd/3.0/us/	*
dc.source	http://link.springer.com/chapter/10.1007/978-3-540-74484-9_48	en
dc.subject	Microarray griding
dc.subject	Microarray image analysis
dc.subject	Τριβή μικροσυστοιχιών
dc.subject	Ανάλυση εικόνων μικροσυστοιχιών
dc.title	Effective quantification of gene expression levels in microarray images using a spot-adaptive compound clustering - enhancement - segmentation scheme	en
heal.type	conferenceItem
heal.generalDescription	Proceedings	en
heal.classification	Technology
heal.classification	Biomedical engineering
heal.classification	Τεχνολογία
heal.classification	Βιοϊατρική τεχνολογία
heal.classificationURI	http://zbw.eu/stw/descriptor/10470-6
heal.classificationURI	http://id.loc.gov/authorities/subjects/sh85014237
heal.classificationURI	N/A-Τεχνολογία
heal.classificationURI	N/A-Βιοϊατρική τεχνολογία
heal.contributorName	Καλατζής, Ιωάννης	el
heal.contributorName	Καγκάδης, Γεώργιος Χ.	el
heal.contributorName	Νικηφορίδης, Γεώργιος Σ.	el
heal.identifier.secondary	DOI 10.1007/978-3-540-74484-9_48
heal.language	en
heal.access	campus
heal.recordProvider	Τ.Ε.Ι. Αθήνας. Σχολή Τεχνολογικών Εφαρμογών. Τμήμα Μηχανικών Βιοϊατρικής Τεχνολογίας Τ.Ε.	el
heal.publicationDate	2007
heal.bibliographicCitation	Daskalakis, A., Cavouras, D., Bougioukos, P., Kostopoulos, S., Georgiadis, P., et al. (2007). Effective quantification of gene expression levels in microarray images using a spot-adaptive compound clustering - enhancement - segmentation scheme. Proceedings of the International Conference of Computational Science and Its Applications. Kuala Lumpur, Malaysia, 26th-29th August 2007. pp. 555-565. Springer Berlin Heidelberg: 2007. Available from: http://link.springer.com/chapter/10.1007/978-3-540-74484-9_48	en
heal.abstract	A spot-adaptive compound clustering-enhancement-segmentation (CES) scheme was developed for the quantification of gene expression levels in microarray images. The CES-scheme employed 1/griding, for locating spot-regions, 2/Fuzzy C-means clustering, for segmenting spots from background, 3/ background noise estimation and spot’s center localization, 4/emphasizing of spot’s outline by the CLAHE image enhancement technique, 5/segmentation by the SRG algorithm, using information from step 3, and 6/microarray spot intensity extraction. Extracted intensities by the CES-Scheme were compared against those obtained by the MAGIC TOOL’s SRG. Kullback-Liebler metric’s values for the CES-Scheme were on average double than MAGIC TOOL’s, with differences ranging from 1.45bits to 2.77bits in 7 cDNA images. Coefficient-of-Variation results showed significantly higher reproducibility (p<0.001) for the CES-Scheme in quantifying gene expression levels. Processing times for 1024x1024 16-bit microarray images containing 6400 spots were 300 and 487 seconds for the CES-Scheme and MAGIC TOOL respectively.	en
heal.publisher	Springer Berlin Heidelberg	en
heal.fullTextAvailability	true
heal.conferenceName	International Conference of Computational Science and Its Applications	en
heal.conferenceItemType	full paper