Annex 6: Habilitation thesis reader's report
Masaryk University Faculty
Field of Habilitation
MU Faculty of Informatics Informatics
Applicant Affiliation Habilitation Thesis
RNDr. Pavel Matula, Ph.D.
Masaryk University, Faculty of Informatics
Image Processing in Fluorescence Microscopy and its Utilization
in Cell Biology Experiments
Reader Affiliation
Professor Horst Bischof Technische Universität Graz, Austria
Report Text (as large as the reader deems necessary)
The habilitation thesis of Pavel Matula, "Image Processing in Fluorescence Microscopy and its Utlization in Cell Biology Experiments", deals with processing of microscopic images, in particular florescence microscopy of biological experiments. This is a topic of broad interest in biology, but also computer science. The thesis deals with all four aspects of this problem. First, automated image acquisition in order to acquire suitable data. Second, image segmentation in order to segment the object of interest. Third, object tracking for following the cells and sub-cell structures; and forth applications in cell nucleus research. I will not review the individual parts, since they are papers that have been peer reviewed, but present an overall evaluation of all four parts together.
First, the topic is of broad interest not only for the cell biologist, but also for the computer scientists. Biological experiments produce now so much data such that there is a great need for automated analyses of this data. In fact there is no other way as an automatic analysis. The thesis presents some workflow for fluorescence imaging. It covers all aspects, from the acquisition to the application side. This is highly commended because there are only a few researchers that can cover all these aspects.
Overall this is a broad piece of work with a substantial contribution in all four areas. In all these areas a substantial amount of publications have been achieved. Some of those publications are in well-known and highly rated journals or competitive conferences. Some of the publications are in less known or less competitive conferences. Overall the publication output is very impressive. And Pavel Matula has in all these publications contributed a substantial amount. The work with different co-authors shows that he can work in a team which is also necessary in such an interdisciplinary field.
Overall the habilititation thesis of Pavel Matula is a timely piece of work, with a substantial contribution in the field of computer vision and image processing. Therefore 1 have no doubt to recommend this thesis.
Reader's questions to answer to defend the habilitation thesis (number of questions is upon reader's consideration)
Since I am not at the defense I do not post questions here.
Conclusion
Pavel Matula's habilitation thesis of Image Processing in Fluorescence Microscopy and its Utilization in Cell Biology Experiments does meet the standard requirements for a habilitation thesis in the field of Informatics.
In Graz on ...10.9.2012
Smlouva
podle § 51 občanského zákoníku Contract in accordance with § 51 of the Czech Civil Code
1. Smluvní strany (Contracting parties)
Objednatel ("Client")
Masarykova univerzita, Fakulta informatiky Botanická 68a 602 00 Brno
Zastoupena (Represented by): děkanem Fakulty informatiky (dean of Faculty of Informatics), prof. RNDr. Michalem Kozubkem, Ph.D. (dále jen "Objednatel" / referred to as "Client")
Poskytovatel („Provider")
Jméno (Name): Prof Horst Bischof
Bydliště (Residence): ..Am Rosenhof2/3 A-8063 Eggersdorfb. Graz.
Stát (Country):............Austria........................................
(dále jen "Poskytovatel"/ referred to as "Provider")
2. Předmět smlouvy (Contract subject)
Předmětem smlouvy je vypracování oponentského posudku na habilitační práci pana Pavla Matuly. The subject of this contract is preparation of a review on Mr. Pavel Matula's habituation thesis.
3. Závazky objednatele (Obligation of "Client")
Objednatel se zavazuje uhradit částku 120 EUR za činnost dle odst. 2.
V případě osobní účasti u obhajoby objednatel dále uhradí částku až do výše 400 EUR na jízdní výdaje a zajistí a uhradí ubytování (max, 3 noci).
Celková částka ve výši.........120............. EUR bude proplacena bankovním převodem.
The Client shall pay the amount of 120 EUR for the activity specified in paragraph 2.
in the case ofpersonal attendance of the Provider at the defence the Client will pay up to 400 EUR for travel expenses and provide and pay for accommodation (max 3 nights). The amount of......120............... EUR will be paid by bank transfer.
4. Závěrečná ustanovení (Final provisions)
Smluvní vztahy založené touto smlouvou se řídí českým právem, zejména příslušnými ustanoveními občanského zákoníku. K řešení případných sporů jsou příslušné české soudy.
Conditions of the contract are based on the Czech law, specifically on the appropriate paragraphs of the Czech Civil Code. Czech courts are competent to resolve any disputes arising.
Poskytovatel podpisem smlouvy stvrzuje, že není osobou povinnou k dani podle Zákona o dani z přidané hodnoty, nevykonává ekonomickou činnost a má daňový domicil v zemi uvedené v adrese v článku 1 této smlouvy.
By signing this contract, Provider confirms that he/she is not a taxable person by the Value Added Tax Code, shall not perform any economic activity and that his/her permanent address related to the tax duties is in the country stated in the paragraph 1 of this contract.
Smlouva nabývá platnosti a účinnosti dnem podpisu poslední ze smluvních stran. Contract enters into force following its signature by all contracting parties.
Smlouvaje vyhotovena ve dvou výtiscích. Každá smluvní strana obdrží po jednom výtisku. The contract is printed in two copies, each contracting party shall keep one.
Date ...10.9.2012
podpis poskytovatelé'S/gMa/we ofProvider
Poskytovatelům z EU a ze zahranič! bude vyplacena částka v plné výši za předpokladu, že existuje Mezinárodni smlouva o zamezeni dvojího zdančsií a tato nestanoví jinak. Pokud tato smlouva neexistuje, bude vyplacená íástka snížená o srážkovou daň dle §36 odst,. la) zákona o dani z příjmu.
Provider from EU and abroad wilt be paid the full amount under the condition that an International Agreement on the Prevention of Double Taxation exists, and does not stipulate otherwise. Should such an agreement not exit, an amount reduced by tax according to Article 36, para lis) of the law on income tax will be paid
Payment information
1. Beneficiary	owner of the bank account	full address
	Horst Bischof	Am Rosenhof 2/3 A-8063 Eggersdorf b. Graz Austria
2, Beneficiary's bank	name of the bank	full address
	Steiermarkische	Hauptplatz A-8820 Neumarkt Austria
3. Account No	15801504711	
4. IBAN (only in EU)	AT432081515801504711	
5. SWIFT (orBIC)	STSPAT2GXXX	
6. Details of payment {if you require this)		
In Graz
Date ...10.9.2012