3-D Nuclear chromatin texture analysis using confocal laser scanning microscopy

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1 3-D Nuclear chromatin texture analysis using confocal laser scanning microscopy André Huisman

2 The research described in this thesis was performed at the department of pathology of the University Medical Center, Utrecht, The Netherlands, with financial support of the National Institute of Health, USA (Grant #1 R01- AG ). Cover: M.C. Escher s Reptiles shows rather innovative animals, since they do not feel convenient in the 2-D plane and start moving into 3-D space. In this thesis we show that the analysis of 3-D texture features results in significantly more information compared to computing 2-D texture features. However, the animals are not completely in 3-D, this is analogous to the 2.5-D technique that confocal laser scanning microscopy actually is The M.C. Escher Company - Baarn. The Netherlands. All rights reserved. Used by permission. Additional color figures are available online at andre@syand.nl ISBN-10: ISBN-13: Huisman, André 3-D Nuclear chromatin texture analysis using confocal laser scanning microscopy 2006 by André Huisman Printed by PrintPartners Ipskamp, Enschede, The Netherlands

3 3-D Nuclear chromatin texture analysis using confocal laser scanning microscopy 3-D textuur analyse van kern-chromatine met behulp van confocale laser scanning microscopie (met een samenvatting in het Nederlands) Proefschrift ter verkrijging van de graad van doctor aan de Universiteit Utrecht op gezag van de rector magnificus, prof.dr. W.H. Gispen, ingevolge het besluit van het college voor promoties in het openbaar te verdedigen op donderdag 11 januari 2007 des middags te 2.30 uur door André Huisman geboren op 24 april 1981 te Arnhem

4 Promotor: Co-promotoren: Prof. Dr. P.J. van Diest Dr. L.S. Ploeger Dr. H.F.J. Dullens Dit proefschrift werd (mede) mogelijk gemaakt met financiële steun van: Propath ( Zeiss ( Genome Diagnostics (

5 (De Schildpad slaat de bladzij om van Djinn en Tonic en ze zien dat het verhaal verder gaat ) Achilles: Hé! Wat is er gebeurd? Waar is mijn Geest? Mijn lamp? Mijn kopje espresso? Wat is er gebeurd met onze jonge vrienden uit de Holle en Bolle werelden? Wat doen al die hagedissen hier? Schildpad: Ik ben bang dat onze context onjuist hersteld is, Achilles. Achilles: Wat mag dat cryptische commentaar in vredesnaam betekenen? Schildpad: Ik doel op de Typeloze Wens die jij hebt gedaan. Achilles: Maar die had ik nog niet gedaan. Schildpad: Jawel. Je zei: Ik wens dat mijn wens niet wordt vervuld en de Geest beschouwde DAT als jouw wens. Achilles: O lieve deugd, dat klinkt onheilspellend. Schildpad: Het klinkt PARADOXAAL. Om die Typeloze Wens te vervullen moest deze ontkend worden maar hem niet vervullen zou neerkomen op wel vervullen. Achilles: Wat gebeurde er dan? Bleef de aarde stilstaan? Stortte het universum ineen? Schildpad: Nee, het Systeem is geflipt. Achilles: Wat betekent dat? Schildpad: Dat betekent, Achilles, dat jij en ik in één klap werden verplaatst naar Tuimelland. Achilles: Waarheen? Schildpad: Naar Tuimelland: het land van de gesmoorde hik en de gedoofde gloeilampen. Het is een soort wachtkamer waar sluimerende software ligt te wachten op zijn gastheer hardware om weer boven te komen. Ik zou je niet kunnen zeggen hoe lang het Systeem plat ging en wij in Tuimelland waren. Het kan ogenblikken geduurd hebben, uren, dagen zelfs jaren. Achilles: Ik weet niet wat software is en ik weet niet wat hardware is. Maar ik weet wel dat ik mijn wensen niet heb kunnen doen. Ik wil mijn Geest terug! Schildpad: Sorry, Achilles je hebt het in het honderd laten lopen. Je hebt het Systeem laten flippen en je mag van geluk spreken dat we nog terug zijn. Alles had veel beroerder kunnen uitpakken. Maar ik heb geen idee waar we zijn. Achilles: Ik herken het nu we zijn in een andere prent van Escher. Ditmaal in Reptielen. Schildpad: Aha! Het Systeem probeerde zoveel mogelijk te redden van onze context voor het flipte en voor het plat ging is het zover gekomen dat het zich herinnerde dat het een Escherprint met hagedissen was. Dat is een pluimpje waard. Fragment afkomstig uit Douglas Hofstadter: Gödel, Escher, Bach: een eeuwige gouden band. Uitgeverij Contact, Amsterdam, 1985.

6

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