|
|
Comparison of bacterial genomes obtained from second and third generation sequencing
Rumlerová, Tereza ; Škutková, Helena (referee) ; Nykrýnová, Markéta (advisor)
This bachelor thesis deals with sequencing technologies with a focus on the second and third generation of sequencers and platforms Illumina Miseq and Oxford Nanopore Technologies MinION. There is a description of an assembly of genomes with an example of the assembly of 6 genomes of a bacteria Klebsiella pneumoniae and a quality testing of these genomes. The final part contains a theoretical description and a practical implementation of selected methods for comparison of the assembled genomes, which come from two different sequencing platforms.
|
|
|
Mobile application for depressive states monitoring
Kamenská, Veronika ; Bartoň, Vojtěch (referee) ; Škutková, Helena (advisor)
The bachelor thesis named Mobile application for monitoring of depressive states has the goal of creating a functional mobile application using the MIT app inventor. This application offers several tests used to determine the user's mental state and options for sending the data. Part of the thesis is also the development of computer software using Python. This software can be used by psychologists to view and evaluate the patient's mental state. To streamline work between consultations, a part of the thesis also aims to create a PC software that uses the data gathered by the application to help psychologists evaluate the condition. And at the end of the work, to statistically evaluate the test results obtained during the winter semester of 2020.
|
|
|
Bacterial genotyping based on the oligonucleotide melting temperature
Šandová, Hana ; Škutková, Helena (referee) ; Nykrýnová, Markéta (advisor)
This bachelor’s thesis deals with genotyping based on the oligonucleotide melting temperatures. In the theoretical part, DNA, typing, experimental and theoretical genotyping methods are described. The practical part of the thesis deals with a program that is designed to calculate the melting temperatures of sequences based on different methods, and the graphical user interface was created. In the following part, the measured melting temperatures of bacterial isolates of Klebsiella pneumoniae are compared to the theoretically calculated melting temperatures. In the last part of the thesis, the possibility of genotyping using cluster analysis based on the theoretical melting temperatures is explored.
|
|
|
CNV detection in the sequencing data
Pleskačová, Barbora ; Škutková, Helena (referee) ; Jugas, Robin (advisor)
Copy number variation detection in prokaryotic organisms is currently receiving more and more attention, mainly due to the association of CNV with pathogenicity and antibiotic resistance in bacteria. The algorithm designed in this thesis uses peak detection in sequencing coverage to detect CNV segments. Read coverage is commonly obtained by mapping sequencing reads of one individual to an already known reference of another individual of the same species. However, two individuals will always differ in a certain number of genes, resulting in unmapped reads that are unnecessarily discarded. Therefore, this work assumes that the biological accuracy of CNV detection can be increased by using a new reference that is created from the same set of reads as the reads mapped to this reference. Sequencing reads of Klebsiella pneumoniae individuals are used to verify this assertion.
|
|
|
CNV detection in bacterial genomes
Lacinová, Michaela ; Sedlář, Karel (referee) ; Škutková, Helena (advisor)
This master thesis deals with analysis of structural variation of genome and with methods of its sequencing across all generations. Subsequently it contains a description of copy number variation and methods of its detection. The experimental part focuses on algorithm proposal for CNV detection according analysis and testing of uneven coverage in genome, variable representation of GC content and distance of sequence reads. Finally, the algorithm for detecting copy number variation is tested on genomic data of bacteria Klebsiella pneumoniae.
|
|
|
Signaling Pathway for Butanol Production in Solventogenic Clostridium Bacteria
Musilová, Jana ; Škutková, Helena (referee) ; Sedlář, Karel (advisor)
Diplomová práce se zabývá studiem signální dráhy produkce butanolu bakterií rodu Clostridium. V první části pojednává o modelování signálních drah pomocí metod systémové biologie. Navazuje popisem zisku dat pro tvorbu a úpravu modelů signálních drah s hlavním zaměřením na techniky pro zjištění genové exprese, produkce a fenotypu. Třetí sekcí je získání základního modelu signální dráhy zapojené do produkce butanolu u solventogenních klostridií. Posledním bodem a zároveň hlavním cílem je vytvoření dynamického modelu signální dráhy produkce butanolu kmene Clostridium beijerinckii NRRL B-598, jeho vyhodnocení pomocí statické a dynamické analýzy a srovnání s biologickými daty.
|
|
|
Human hearing sensitivity assesment
Tinka, Dominik ; Sekora, Jiří (referee) ; Škutková, Helena (advisor)
Bachelor thesis aims to evaluate changes of sensitive human hearing through created mobile application. According to obtained teoretical knowledges mobile application provide audiometrical measurements. In connection with this is described adjustments of sound outcomes of mobile, which is set in pursuance of calibrate unit. In the next part is described methodics of measuring and processing measured data. Static evaluation is processed on collected measured data from one proband and group of probands. Measurements on one proband were repeated for couple of days. The end of this thesis discusses about obtained results, which challenges the hypothes about sensitivity of hearing.
|
|
|
Testing of Recognizing Spatial Intelligence
Malý, Tomáš ; Škutková, Helena (referee) ; Sekora, Jiří (advisor)
This thesis deals with measurement issues in psychology, specifically online diagnostics of spatial abilities. It gives a brief look on psychological construct of intelligence and methods of measuring it, currently in the context of the most spread theory of intelligence C-H-C (Cattell- Horn-Carroll). This thesis focuses on ability called „Visualization“, that is understood as the ability to process visual perceptions and manipulate them in our imagination. The thesis includes functional software, which is made for online computer testing of spatial abilities in children of preschool, or school age.
|
|
|
Mobile application for psychodiagnostics of preschool children
Guryča, Ondřej ; Smíšek, Radovan (referee) ; Škutková, Helena (advisor)
This bachelor thesis deals with the possibility of preschool children psychodiagnostics using a smartphone application. It is focused on the principle of psychodiagnostics and its different approach to preschool children psychodiagnostics, there are also described tests used in nowaday psychodiagnostics. In the next part is presented the current implementation of the OS Android application with chosen tests. At the end is an explanation of the way of evaluating data and recommendations for using the app.
|
|
|
Pozitive and negative selection of mitochondrial genome
Svoboda, Matěj ; Škutková, Helena (referee) ; Maděránková, Denisa (advisor)
This bachelor thesis deals with positive and negative selection detection in mitochondrial genome of invertebrates and vertebrates. The component of this paper is to interpret the theory of evolution and evolution models. The main objective of this bachelor thesis is to formulate the algorithm package for a positive and negative selection detection in a program environment, RStudio. Consequently, outcomes of algorithm are compared to values acquired by tool PAML.
|
guest ::
