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Protein Domains Prediction
Valenta, Martin ; Martínek, Tomáš (referee) ; Burgetová, Ivana (advisor)
The work is focused on the area of the proteins and their domains. It also briefly describes gathering methods of the protein´s structure at the various levels of the hierarchy. This is followed by examining of existing tools for protein´s domains prediction and databases consisting of domain´s information. In the next part of the work selected representatives of prediction methods are introduced. These methods work with the information about the internal structure of the molecule or the amino acid sequence. The appropriate chapter outlines applied procedure of domains´ boundaries prediction. The prediction is derived from the primary structure of the protein, using a neural network The implemented procedure and its possibility of further development in the related thesis are introduced at the conclusion of this work.
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Web Server for Protein Secondary Structure Prediction
Villem, Lukáš ; Očenášek, Pavel (referee) ; Burgetová, Ivana (advisor)
This master’s thesis deals with protein secondary structure prediction. There is a theoretical introduction followed by study of available tools, proposal and implementation of web application, which combines functionality of several web tools used to predict secondary structure. User is asked to choose prediction methods and insert input sequence as plain text or upload a file. Results collected from selected tools serve to convert data into common format, show the result and create new type of prediction. Finally, the testing is applied and influences of tools are adjusted in order to increase percentage of prediction. The output of application is a result of prediction also available as plain text or as a file.
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System for Service Level Agreement Management
Drozd, Radek ; Burgetová, Ivana (referee) ; Rychlý, Marek (advisor)
This thesis explores the topic of service level agreements management according to IT Infrastructure Library as a structured document. First of all ITIL in general is briefly described, analysis and a structure of SLA is then defined. This is a base for conceptual model definition. Later design and implementation of a web service and a client web application are presented. Both applications will be used as a tool in the course being held by our faculty.
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Creation of Unit for Datamining
Krásenský, David ; Burgetová, Ivana (referee) ; Lukáš, Roman (advisor)
The goal of this work is to create data mining module for information system Belinda. Data from database of clients will be analyzed using SAS Enterprise Miner. Results acquired using several data mining methods will be compared. During the second phase selected data mining method will be implemented such as module of information system Belinda. The final part of this work is evaluation of acquired results and possibility of using this module.
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Information System for Restaurants and Bars
Mašlaň, Petr ; Weiss, Petr (referee) ; Burgetová, Ivana (advisor)
The aim of this work is to study methods for requirement determination and specification methods to create information system on the .NET platform which will be specialized for restaurant and bar establishments. The information system will be therefore process and archive informations about condition of goods, employee's schedule of working shifts, summary of incomes and expenses and book of norms.
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Application for the Data Processing in the Area of Genome Engineering
Brychta, Jan ; Burgetová, Ivana (referee) ; Očenášek, Pavel (advisor)
This masters thesis has a few objectives. One of them is to acquaint with the problems of genome engineering, especially with fragmentation of DNA, the macromolecule DNA, the methods for purification and separation of the nucleic acids, the enzymes used for modification of these acids, amplification and get to know with cluster and gradient analysis as well. The next aim is to peruse the existed application and compare it to the layout of the proposed application, that is the third aim. The last one from the objectives is the implementation and the report how was the application tested by the real data. The results will be discussed as well as the possibilities of the further extension.
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Techniques for Comparing Biological Sequences
Sladký, Roman ; Křivka, Zbyněk (referee) ; Burgetová, Ivana (advisor)
This work presents the building up of basic biological units DNA, RNA and proteins as well as their function. Provided data are kept in biological databases which are connected worldwide to supply preferable communication along with all kinds of available information to be used in the scientific research. The secret of alive is hidden in genes coded in sequences of nucleotides. Genes enable the creation of proteins which are made of sequences of amino-acids. The wide-spread methods of comparing these sequences are FASTA and BLAST algorithms. Their base is used for the PSProt program which is described in this work. PSProt program is the tool for comparing the sequences of proteins. First it is necessary to synthesise the protein from the DNA oligonucleotide because it codes the surveyed protein. The most similar proteins are searched out by heuristic of hitpoints, then their final score that is essential for aligning is modified by semiglobal alignment algorithm.
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Maintainable Version of the ACSA Information System
Šramka, Michal ; Bartík, Vladimír (referee) ; Burgetová, Ivana (advisor)
The goal of this master's thesis is creating a concept of architecture for new information system of the Academic Center for Students Activities. New information system of the Academic Center should be well documented and better maintainable. The first part deals with software maintenance and software architecture design. The second part contains analysis of current information system of Academic Center for Students Activities and also the architecture of new system is designed. The next parts are design of framework for the new system and also design of particular modules. Then there are implementation of designed parts and testing on real data.
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Recursive Web Search in KDE
Hefka, Lukáš ; Burgetová, Ivana (referee) ; Burget, Radek (advisor)
The bachelor thesis deals with problems related to web sites browsing from the KDE desktop environment. Part of this thesis is to introduce the application interface of this environment, suggestion description and application amplementation. The thesis supports range of restrictions both for searching area and searching itself. Application goes through the internet with the help of recursion and hypertext links. In conclusion there are descriobed application advatages in comparison with other alternative.
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Finding Approximate Palindromes in DNA Sequences
Remiáš, Richard ; Burgetová, Ivana (referee) ; Martínek, Tomáš (advisor)
This work discusses problematics of exact and approximate palindrome searching. In relation with exact palindrome searching, native algorithm and algorithm using suffix trees, which construction is also analyzed, is presented. Approximate palindrome search is implemented with application of dynamic programming principles. The search itself is dividded into three parts: palidnrome search, result filter and reconstruction of palindromes. Each part is described by an algorithm and implemented in a program, contained in attachment.
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