Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 20 of 34 for “"Target Prediction"”.
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Building Profiles for miRNA Target Prediction
… However, current methods for determining the targets for miRNAs are far from accurate. To address this issue, we developed algorithms that produced profiles of miRNA recognition elements and features such binding energy threshold and conservation score. These profiles will be used to train a …
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TOWARDS UNDERSTANDING MODE-OF-ACTION OF TRADITIONAL MEDICINES BY USING IN SILICO TARGET PREDICTION
… structures to activities against protein targets, we are now in a position to propose computational hypotheses for the MOAs using in silico target prediction. The MOAs were established from supporting literature. The in silico target prediction, which is based on the “Molecular Similarity …
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A combinatorial approach for improved target prediction, validation, and characterization of small RNAs in Escherichia coli
… small RNAs (sRNAs) are involved in regulating targets involved in various processes in the cell, including stress responses and metabolic processes. As RNA regulators that are degraded rapidly, they are ideal for fine-tuning gene expression in response to rapid environmental changes. Even …
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Multi-target Prediction Methods for Bioinformatics: Approaches for Protein Function Prediction and Candidate Discovery for Gene Regulatory Network Expansion
… functional analysis and the intrinsic multi-target nature of this task. To this end, we propose different predictive methods, specifically developed to exploit side knowledge among target variables and examples. As a first contribution we face the task of protein-function prediction and more …
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Computational analyses of small molecules activity from phenotypic screens
… on the one gene-one disease paradigm nor on target-based screening alone to discover new drugs. Phenotypic-based screening is regaining momentum to discover new compounds since those assays provide an environment closer to the physiological state of the disease and allow to better anticipate …
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INTEGRATING CHEMICAL, BIOLOGICAL AND PHYLOGENETIC SPACES OF AFRICAN NATURAL PRODUCTS TO UNDERSTAND THEIR THERAPEUTIC ACTIVITY
… Baldo This research aims to utilise ligand-based target prediction to (i) understand the mechanism of action of African natural products (ANPs), (ii) help identify patterns of phylogenetic use in African traditional medicine and (iii) elucidate the mechanism of action of phenotypically active …
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Using Heterogeneous Information Sources for Understanding and Predicting Biological Effects of Compounds
… of new data modalities such as PROteolysis TArgeting Chimeras (PROTACs). In the first chapter, “Probabilistic Random Forest improves bioactivity predictions close to the classification threshold by taking into account experimental uncertainty”, a novel algorithm was evaluated and …
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Cell Signalling and MicroRNAs: Regulation and Evolution
… regulators of gene expression that are able to target more than 60% of all human protein-coding genes as well as being involved in many diseases. While the role of microRNAs in regulating several components of signalling networks is known, our current knowledge lacks a systematic overview of …
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Energy Efficient Target Tracking in Wireless Sensor Networks: Sleep Scheduling, Particle Filtering, and Constrained Flooding
… difficult to recharge once deployed. For target tracking---one of the most important WSN application types---energy efficiency needs to be considered in various forms and shapes, such as idle listening, trajectory estimation, and data propagation. In this dissertation, we study three …
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Using biological and chemical information to improve understanding of drug mechanism of action on the systems-level
… for their ability to retrieve compound targets and mechanistic signalling pathways from prior knowledge networks. We found that these algorithms generally perform poorly for recovering targets; but are able to recover mechanistic pathways better than traditional pathway enrichment using …
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Knowledge Intensive Learning: Combining Qualitative Constraints with Causal Independence for Parameter Learning in Probabilistic Models
… domains. There is abounding knowledge about the target features ascribing to the centuries of medical research while the positive samples are rare due to the peculiarity of some diseases. Because the training data is so sparse, a learning algorithm that builds predictive models must be able to …
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Involvement of microRNAs and their targeted genes in the pharmacogenomics of lithium response in bipolar disorder: a genome wide study
… the top hits of the two datasets. Subsequently, target prediction with online miRNA target prediction software helped to narrow down the list of the inverse correlated couples (miRNA-mRNA) and select miRNAs and target mRNAs for validation with qRT – PCR. Two out of four selected miRNAs were …
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ROLE OF MICRORNAS IN THE PATHOGENESIS OF ATOPIC DERMATITIS
… of keratinocyte differentiation. By using target prediction software and luciferase assay, we identified SOX6 and CASP7 as novel bona fide targets of miR-335. Both SOX6 and CASP7 were found to be overexpressed in AD skin. SOX6 was shown to regulate keratinocyte differentiation, while CASP7 …
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Investigation of miRNAs Expression in a Citron-Kinase Mutant Model of Microcephaly
… of mitogens and addition of BDNF. Lastly, miRNA target prediction software was used to tabulate all highly predicted and verified gene targets for comparison with transcriptome analysis data. Gene targets of the down-regulated miRNAs in the MFBC population correlated with an up-regulation of …
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Extracellular Vesicles as Mediators of Communication Between Endothelial Cells and Fibroblasts
… of EC-EVs identified abundant miRNA cargo, and target prediction using the miRWalk database yielded over 13,000 high confidence gene targets. Bulk RNA sequencing of fibroblasts treated with EC-EVs for 24 and 48 hours revealed differentially expressed genes, with enrichment in angiogenic, …
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Silencing the host : the role of intronic microRNAs
… molecules are ~22 nucleotides in length and, by targeting predominantly the 3' UTR of mRNAs, lead to translational repression or degradation of the target message, hence controlling important cellular mechanisms, including division, differentiation and death. This key role makes them excellent …
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Early biomarkers to predict grade of encephalopathy following hypoxic ischaemic injury
… encephalopathic infants and controls. miRNA target prediction databases identified potential targets for the altered miRNA in pathways involved in cellular metabolism, cell cycle and apoptosis, cell signaling, and the inflammatory cascade. Conclusion: This thesis has demonstrated that the …
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Systems Biology Approaches to Probe Gene Regulation In Bacteria
… types of data. The method was shown to improve target prediction in <em>Escherichia coli</em>, and therefore is useful to prioritize candidate targets for experimental validation.</p>
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Machine Learning Approaches for Identifying microRNA Targets and Conserved Protein Complexes
… problems in bioinformatics research: microRNA-target prediction and the identification of conserved protein complexes across species. We define the two problems and develop novel approaches for solving them. MicroRNAs are short non-coding RNAs that mediate gene expression. The goal is to …
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Real-time brain-machine interface architectures : neural decoding from plan to movement
… estimating the continuous movement trajectory or target intent. However, natural movement often incorporates both. Moreover, both target and trajectory information are encoded in the motor cortical areas. These suggest that BMIs should be designed to combine these principal aspects of movement. We …
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