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OPTIMIZATION OF ALGORITHMS AND DATA STRUCTURES FOR REGULAR EXPRESSION MATCHING USING FPGA TECHNOLOGY
Kaštil, Jan ; Plíva, Zdeněk (referee) ; Vlček, Karel (referee) ; Kotásek, Zdeněk (advisor)
Disertační práce se zabývá rychlým vyhledáváním regulárních výrazů v síťovém provozu s použitím technologie FPGA. Vyhledávání regulárních výrazů v síťovém provozu je výpočetně náročnou operací využívanou převážně v oblasti síťové bezpečnosti a v oblasti monitorování provozu vysokorychlostních počítačových sítí. Současná řešení neumožňují dosáhnout požadovaných multigigabitových propustností při dodržení všech požadavků, které jsou na vyhledávací jednotky kladeny. Nejvyšších propustností dosahují implementace založené na využití inovativních hardwarových architektur implementovaných v FPGA případně v ASIC. Tato disertační práce popisuje nové architektury vyhledávací jednotky, které jsou vhodné pro implementaci jak v FPGA tak v ASIC. Základní myšlenkou navržených architektur je využití perfektní hashovací funkce pro implementaci přechodové tabulky konečného automatu. Dále byla navržena architektura, která umožňuje uživateli zanést malou pravděpodobnost chyby při vyhledávání a tím snížit paměťové nároky vyhledávací jednotky. Disertační práce analyzuje vliv pravděpodobnosti této chyby na celkovou spolehlivost systému a srovnává ji s řešením používaným v současnosti. V rámci disertační práce byla provedena měření vlastností regulárních výrazů používaných při analýze provozu moderních počítačových sítí. Z provedené analýzy vyplývá, že velká část regulárních výrazů je vhodná pro implementaci pomocí navržených architektur. Pro dosažení vysoké propustnosti vyhledávací jednotky práce navrhuje nový algoritmus transformace abecedy, který umožňuje, aby vyhledávací jednotka zpracovala více znaků v jednom kroku. Na rozdíl od současných metod, navržený algoritmus umožňuje konstrukci automatu zpracovávajícího libovolný počet symbolů v jednom taktu. Implementované architektury dosahují v porovnání se současnými metodami úspory paměti zlepšení až 200MB.
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Methods for class prediction with high-dimensional gene expression data
Šilhavá, Jana ; Matula, Petr (referee) ; Železný, Filip (referee) ; Smrž, Pavel (advisor)
Dizertační práce se zabývá predikcí vysokodimenzionálních dat genových expresí. Množství dostupných genomických dat významně vzrostlo v průběhu posledního desetiletí. Kombinování dat genových expresí s dalšími daty nachází uplatnění v mnoha oblastech. Například v klinickém řízení rakoviny (clinical cancer management) může přispět k přesnějšímu určení prognózy nemocí. Hlavní část této dizertační práce je zaměřena na kombinování dat genových expresí a klinických dat. Používáme logistické regresní modely vytvořené prostřednictvím různých regularizačních technik. Generalizované lineární modely umožňují kombinování modelů s různou strukturou dat. V dizertační práci je ukázáno, že kombinování modelu dat genových expresí a klinických dat může vést ke zpřesnění výsledku predikce oproti vytvoření modelu pouze z dat genových expresí nebo klinických dat. Navrhované postupy přitom nejsou výpočetně náročné. Testování je provedeno nejprve se simulovanými datovými sadami v různých nastaveních a následně s~reálnými srovnávacími daty. Také se zde zabýváme určením přídavné hodnoty microarray dat. Dizertační práce obsahuje porovnání příznaků vybraných pomocí klasifikátoru genových expresí na pěti různých sadách dat týkajících se rakoviny prsu. Navrhujeme také postup výběru příznaků, který kombinuje data genových expresí a znalosti z genových ontologií.
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Optimization of network flow monitoring
Žádník, Martin ; Lhotka,, Ladislav (referee) ; Matoušek, Radomil (referee) ; Sekanina, Lukáš (advisor)
The thesis deals with optimization of network flow monitoring. Flow-based network traffic processing, that is, processing packets based on some state information associated to the flows which the packets belong to, is a key enabler for a variety of network services and applications. The number of simultaneous flows increases with the growing number of new services and applications. It has become a challenge to keep a state per each flow in a network device processing high speed traffic. A flow table, a structure with flow states, must be stored in a memory hierarchy. The memory closest to the processing is known as a flow cache. Flow cache management plays an important role in terms of its effective utilization, which affects the performance of the whole system. This thesis focuses on an automated design of cache replacement policy optimized to a deployment on particular networks. A genetic algorithm is proposed to automate this process. The genetic algorithm generates and evaluates evolved replacement policies by a simulation on obtained traffic traces. The proposed algorithm is evaluated by designing replacement policies for two variations of the cache management problem. The first variation is an evolution of the replacement policy with an overall low number of state evictions from the flow cache. The second variation represents an evolution of the replacement policy with a low number of evictions belonging to large flows only. Optimized replacement policies for both variations are found while experimenting with various encoding of the replacement policy and genetic operators. The newly evolved replacement policies achieve better results than other tested policies. The evolved replacement policy lowers the overall amount of evictions by ten percent in comparison with the best compared policy. The evolved replacement policy focusing on large flows lowers the amount of their evictions two times. Moreover, no eviction occurs for most of the large flows (over 90%). The evolved replacement policy offers better resilience against flooding the flow cache with large amount of short flows which are typical side effects of scanning or distributed denial of service activities. An extension of the replacement policy is also proposed. The extension complements the replacement policy with an additional information extracted from packet headers. The results show further decrease in the number of evictions when the extension is used.
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(Arbo)viruses in high European Arctic
ELSTEROVÁ, Jana
Since an ongoing climate change covers strongly the polar areas. Higher temperatures and related climate parameters bring the emergence of new parasites and their pathogens to higher latitudes. This may influence zoonotic diseases including arthropod-transmitted diseases. The tick species Ixodes uriae, parasitizing seabirds in the Arctic, may transmit many pathogens including various arboviruses, Borrelia spirochetes and Babesia apicomplexans. In the study we diagnosed 89 individuals of seabird tick Ixodes uriae and searched for arthropod-borne viruses from the genera Flavivirus, Alphavirus, Orthobunyavirus, Phlebovirus and Orbivirus using genus-specific primers. Moreover we searched for presence of Borrelia spp. and Babesia spp. DNA in the ticks. All samples were negative after PCR amplification for all tested pathogens. The result signalizes that tested pathogens might not be present in such high latitudes of European Arctic. Though, the possibility of introduction of these pathogens may be observable in near future due to quick changing of the Arctic ecosystem with the rising of migration of vertebrate hosts including humans to the polar areas. It is though important to continue to study potential presence of pathogens in polar areas. We are working on increase of the number of tick samples to confirm the presence or absence of the tick-borne pathogens in the European Arctic.
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Právní a zdravotně sociální aspekty činnosti OSPOD jako ustanovených opatrovníků v zámu nezletilých dětí
BORSKÁ, Jana
The Czech Republic as a signatory of the Convention on the Rights of the Child has vested the practice of state administration in the field of care for minor children to municipalities with extended powers, where the protection of the rights and legitimate interests of minor children is safeguarded by state authorities of social and legal protection of children (ASLPC hereinafter). These authorities are incorporated to the extent laid down by the Act on Social and Legal Protection of Children (Act No 359/1999 Coll., as amended). The position and roles of ASLPC and their competence and jurisdiction are also regulated by the same act. The position of workers of these authorities and its legal embodiment is equally important. Regarding professionality, there are high demands on these workers. In the Czech Republic, significant changes in legislature have been made over the past three years. These amendments have led to the strengthening of the rights of minor children and to the establishing of new tools for their protection. In connection with the adoption of new substantive regulation of family law, which is now exhaustively dealt with by the Act No 89/2012 Coll., the Civil Code, new procedural rules have been established regarding protection of rights of minor children. Such procedural legislation includes (apart from the long-existent Act No. 99/1963, the Code of Civil Procedure) the Act No 292/2013 Coll., on Special Civil Proceedings. The decision-making regarding minor children has been vested mainly by the state into the competence of courts. The courts appoint the locally relevant ASLPC as a guardian who then represents the interests of minor children. The purpose, interwoven with and derived from the first one, was to explore the opinions of selected social workers of ASLPC and of district court judges regarding the defined problems occurring during the work of ASLPCs and courts while protecting the interests of minor children. These particularly include: the use of the tool of precautionary measure; problems of different territorial jurisdiction of courts and ASLPCs; processing of complaints regarding bias in various phases of the proceedings; professional training of workers of ASLPC It is evident from the proposals of both judges and ASLPC workers that it is necessary to unify territorial jurisdiction. The courts are suggesting the priority criterion of the address where the child mainly resides. ASLPC workers suggest the official permanent residence as the prime criterion. Bias causes problems in all phases of proceedings. It is obvious that courts take differing approaches towards the solution of this problem (some courts solve the problem of bias complaints filed by the parties while other courts do not) and for ASLPC workers it is difficult to assess how to act when such complaint is raised against them. The training of ASLPC workers - workers are obliged to educate themselves and their employer is obliged to finance such training. Not all ASLPCs are able to provide training in the required extent - due to financial reasons (the average costs of education of one employee pose from 9,169 to 13,400 CZK annually and they cover approximately 6 days of training). The heavy work-load caused by insufficient numbers of ASLPC employees prevents them from completing such compulsory training. As part of the examination of the "participation of a collision guardian in court proceedings" it has been found out that irregular participation of the worker in the proceedings (absence from participation in appeals proceedings); incomplete reports (directed to courts) from surveys in families. Based on comprehensive examination of the problems of territorial jurisdiction, it was recommended that requests are independently recorded and financial compensation is provided for ASLPCs who are requested to represent minors in front of courts, to draft proposals for precautionary measures.
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Measuring phonological awareness – blend phoneme test in the beginning of schooling: an comparison of classical test theory and item response theory
Gorčíková, M. ; Šafr, Jiří
The main purpose of this paper is to show dis/advantages of two approaches classical test theory (CTT) and item response theory (IRT) to assess the level of diagnostic tools for evaluating phonemic awareness among first-grade students using longitudinal survey of children during the first grade of primary school (25 schools in Prague and Central Bohemia, 439 pupils). Phonemic awareness (FA) was measured by the task blend phonemes into syllables and words. The advantage of IRT compared to CTT is primarily a concept of independence of the test items. The probability of a response is dependent on the level of latent ability and characteristics of items. So if we know the characteristic of items parameter (difficulty) it could be estimated from the pupil´s responses the level of language skill for diagnostics. The results showed the need for blend phoneme test modifications (in particular for the end of the first grade) so as to adequately measure the high growth of FA ability levels during the first grade.
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Characteristics of the working behavior of Czechs and Ukrainians
BYKOVA, Sofia
The aim of this work is to create a transparent and comparable characteristics of the work behavior phenomenon within the cultures of those states - what is common and what is different between them, or maybe incompatible .It is supposed to have some analysis of possible conflicts and their connection with the mentality. The primary reason of this aim choosing is the specialty I study. My work contains information that could be interesting and useful not only for me and my future job, but also for managers and other employees. Overview of examined issues contains specific points, such as the fundamentals of economic psychology and behavioral economics (symbiosis of psychological and economic opinion on motivation and rationality of individuals), theories of motivation and reaction to different occurrence, characteristic of the term "mentality", general points about the human impact of the world economy. For realizing the goals of my work the following hypotheses have been proposed - Czech and Ukrainian mentality have significant differences, though these cultures are close. - Ukrainian and Czech employees are able to work effectively in a team and find a "common language" in the workplace. The difference in mentality does not obstruct on it. - Employers could be interested in the Ukrainian employees taking into account their high concernment and motivation. All three of the hypotheses were confirmed by observed data and comparison of mentality characteristics. Czechs are often tolerant to other cultures, moreover Ukrainian culture is not much different and does not create difficulties in the working relationship. Based on the fact that the chosen company has no conflicts associated with work behavior and differences in mentality, it's hard to define my contribution to this organization work.
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Doped DLC coatings for biomedical applications
Písařík, Petr
Nowadays there are materials having excellent properties for use in medicine (Diamond-like carbon, Hydroxyapatite, …). Diamond-like carbon (DLC) is a metastable form of amorphous carbon containing bonded carbon atoms of sp2 and sp3 hybridized orbital. DLC layers are semiconductors with high mechanical hardness, chemical inertness, low coefficient of friction, high thermal conductivity, good electrical and optical properties, biocompatibility and no cytotoxicity. All properties of the films are not always ideal, so it is necessary to modify the layer. One example of how to modify the properties of thin layers are dopations. The incorporation of dopants in films may lead to greater multifunctionality and much improved properties. Most modifications were made to modify contact angle and surface energy, to reduce internal stresses, to decrease surface roughness, coefficient of friction or wear....
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Nursing care management of patients after intrapleural chemical pleurodesis
KIESEWETTEROVÁ, Renáta
The pleurodesis is a treatment method for patients suffered from the symptomatic malignant pleural effusion. The goal of the pleurodesis is to close a pleural area by connection of visceral and parietal pleura in order to reduce or terminate production of pleural effusion. The sterile talc powder is the world's most used agens within a practice. After a parental analgesic is the powder (as a sllury) either applicated into a pleural cavity through the chest drainage or surgically dispersed over the treated (via abrasion, decortication) pleural space during the thoracoscopy/thoracotomy. This diploma thesis focuses on the treatment technique of bedside talc-pleurodesis through the chest drainage. The nurse has an irreplaceable role in the whole process from a preparation of patient to assistance by intrapreural application, to care of patient after the operation or serves as a physical support during potential complications. The aim of the presented work is to detect priorities in nursing care and find out whether patients need increased care after intrapleural therapy. The qualitative research method was chosen for the analysis where semi-structural interview with open questions were used. We created case reports analysed with the adaptive model of Callista Roy as well. The research sample contained patients chosen with respect to specialization of researched problem. We set two basic focal stimuli according to the analysis of respondents´ reactions. These stimuli serve as a basis for determination of priority parts of the nursing care by patients after bedside pleurodesis. We defined the need to be without pain and the need to ensure safety and certainty as a central focus of the nursing care. Among secondary fields of nursing care were identified sleep disturbances and limited mobility, which leads to reduction of self-care in getting dress, hygiene as well as in defection and miction. We found out within the second goal identical intensity of the nursing care before and after bedside talc-pleurodesis. This statement is based on comparison of interventions before and after aplication analysed via adaptive model by Roy. Nevertheless, causes of interventions were modified to a certain extent. The main goal of diploma thesis was to map requirements for high-quality nursing care related to bedside talc-pleurodesis via chest drainage. The work should extend theoretical basis not only for nurses in clinical practice.
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