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de Vries, M.M. (author)We start our introduction to DNA matching with the direct match case: we find DNA at a crime scene and find a direct match with a member of our database. To measure the strength of our case against the match, we use likelihoodratios. We differentiate between two different situations: the probable cause case, where we already suspect our match and...bachelor thesis 2016
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Van den Haak, P. (author), Cheung, M. (author)Major research efforts in Bioinformatics include sequence alignment, gene finding, genome assembly, protein structure alignment, protein structure prediction, prediction of gene expression and protein-protein interactions, and the modeling of evolution. To perform these specific tasks different tools are used. Using these tools separately is a...bachelor thesis 2008
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Slingerland, Eva (author)Nowadays, enormous amounts of data are produced on a daily basis. Whether it is a cute family<br/>picture, a funny cat video, or a scientic paper, all of the data is stored. The challenge in data<br/>storage nowadays is about nding a way to store a lot of data, in such a way that it will stay<br/>preserved for many years without too much...bachelor thesis 2019
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Ça?layan, F.H. (author), Heij, R.W. (author), Geers, M. (author)Due to advancing technology, genetic sequencing has become cheaper over the years. This has caused the demand for computational power to grow even faster than Moore's law. To remedy this problem, we analyzed low-cost hardware solutions to parallelize the computational part of the genetic sequencing. We proposed a novel method for calculating the...bachelor thesis 2013
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Koolstra, K. (author)Het sturen van DNA door een klein gaatje in een kunstmatig membraan biedt mogelijkheden voor het aflezen van een DNA streng. Tijdens dit proces beweegt de streng zich in een vloeistof, waardoor allerlei fysische effecten een rol gaan spelen. De krachten die op de streng werken zorgen ervoor dat de DNA streng zich van de ene kant van het membraan...bachelor thesis 2013
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Priem, L.S. (author)Translocatie van een ketting met verschillende kraaltjes door een zeer kleine porie kan gebruikt worden als een eerste stap voor het modelleren van het transport van DNA door een membraan. Dit translocatieproces biedt een groot aantal kansen in chemische en biologische processen, zoals het snel kunnen afezen van DNA. Het translocatieproces wordt...bachelor thesis 2011
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Elgersma, Maaike (author)The global use of azole antifungals as treatment against infections caused by <i>Candida</i> has led to an increase in azole resistance. The primal goal of this BSc thesis is to improve existing Mixed Integer Optimization models to classify azole resistance of <i>C. glabrata</i> more accurately by preventing overfitting. Moreover, these...bachelor thesis 2019
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Van der Leije, M.R. (author)Unbalanced transaction can lead to addition and deletions in genes, which can be an indication of tumor cells. This is measured with array Comparative Genomic Hybridization. To find co-occurring aberrations in DNA, an algorithm was designed. However the execution takes days to find these DNA aberrations. This thesis proposes a partial FPGA based...master thesis 2009
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De Kever, M.C.A. (author)Translocating a chain of different beads through a very small pore can be used as a first step of modelling a DNA chain that passes through a nanopore. This translocation process offers a variety of possibilities in chemical and biological processes, for instance rapid DNA sequencing. In this thesis the chain is modelled as a polymer with...master thesis 2011
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Florescu, Stefanos (author)Over the past 20 years, the cost of sequencing genomes has reduced drastically. As DNA data grows at an unprecedented rate, the need for fast and affordable software and hardware solutions for DNA analysis is higher than ever. A critical and time-consuming component in any DNA analysis pipeline is sequence alignment, which refers to mapping...master thesis 2022
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Van Osnabrugge, B. (author)DNA has a number of characteristics which make it very promising as a hydrological tracer. It is detectable in extremely low quantities and can provide a virtually unlimited amount of unique tracers. The DNA tracer method has been further developed towards a multipurpose tracer combining a DNA tag, a paramagnetic core and a protective coating...master thesis 2015
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Patsis, K. (author)The goal of this study was to dive into the novel techniques associated with the use of the available Third Generation DNA Sequencing (TGS) platform, PacBio. This 3-year old technology sounded promising right from the beginning but its groundbreaking attributes, like length and error content, required unconventional handling to yield worthwhile...master thesis 2014
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- Kruit, Vincent (author) master thesis 2023
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Lévy, Jonathan (author)DNA aligning is a compute-intensive and time-consuming task required for all further DNA processing. It consists in finding for each DNA string from a sample its location in a reference genome. Usual techniques for short reads (hundreds of bases) involve seed-extension, where a small matching seed is found with quick search through FM-index and...master thesis 2019
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Qiu, Tongdong (author)Third generation sequencing machines produce reads with tens of thousands of base pairs.<br/>To perform de novo assembly, all reads must be compared with every other read to find overlaps.<br/>Finding overlaps with the optimal Smith-Waterman is not feasible, since the complexity of Smith-Waterman is quadratic with the length of the reads.<br/...master thesis 2018
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van Aken, Joris (author)Cartilage repair remains a major challenge and treatment of osteochondral defects generally results in inferior quality fibrous repair tissue. This study aims to elaborate on the work of Korthagen et al. who developed a thermoplastic polyurethane and polyetherketoneketone implant to treat osteochondral defects. Although promising results were...master thesis 2019
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Vermond, Lukas (author)In an effort to make DNA sequencing more accessible and affordable, Oxford Nanopore Technologies developed the MinION: A portable cellphone sized DNA sequencing device. Translating the information from this device to a nucleotide sequence is called basecalling, and is done with the aid of artificial neural networks. In this thesis, we accelerate...master thesis 2020
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Damsteeg-van Berkel, S. (author)DNA can function as a significant part of evidence in forensic investigation, because it can link a potential perpetrator to a crime. Even by skin contact, micro-traces of DNA-containing material can be transferred. This type of DNA is called ‘trace DNA’. When DNA is collected from an evidentiary item for forensic purposes, the goal is to...master thesis 2017
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Straver, R. (author)Motivation: Numerous genetic disorders can be detected in prenatal diagnosis using Chorionic Villus Sampling. As this brings a 1:100 chance for miscarriage, this method is only applied when the fetus is suspected to have an increased chance at having an aberration. It is known that a small percentage of DNA in maternal plasma is of fetal origin...master thesis 2012
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Conticini, C. (author)Y-haplotype profiling presents special advantages for forensic casework, paternity and population studies. Y-chromosome DNA is male-specific and can sometimes be detected in stains where autosomal DNA cannot. When a suspect in a criminal case has the same Y-haplotype as found in a crime stain, what is the evidential value of the match? In such...master thesis 2011