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.
Results
Showing 1 to 20 of 44 for “"High-throughput data"”.
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Software Switching for High Throughput Data Acquisition Networks
… many-to-one communication pattern, typical for data acquisition systems, is particularly demanding for commodity TCP/IP and Ethernet technologies. The problem arising from this pattern is widely known in the literature as incast and can be observed as TCP throughput collapse. It is a result of …
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Discovering contextual connections between biological processes using high-throughput data
… in interpreting rapidly-growing repositories of data, the fields of bioinformatics and computational systems biology continue to bear increasingly sophisticated methods capable of summarizing and distilling pertinent phenomena captured by high-throughput experiments. Techniques in analysis of …
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Using high throughput data to understand microbes and their interaction with the environment
… with the environment. However, sequencing data alone is unlikely to provide such understanding without the help of appropriate computational models and analyses. For the first part of this thesis, I applied to the infant gut microbiome an approach previously used to understand the order of …
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High-throughput data mined prediction of inorganic compounds and computational discovery of new lithium-ion battery cathode materials
… of modern ab initio techniques. In some cases, high-throughput computations can be used to create large data sets of potential compounds and their computed properties. However, regardless of the field of application, such a computational high-throughput approach faces a major problem: to be …
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Top-Down Proteomics: Separation and Mass Spectral Characterization of Complex Cell Lysates From Methanosarcina Acetivorans and Human Cancer Cells
… automation platform and an iterative data search strategy has allowed for high-throughput data acquisition to be possible with top-down protein analysis. Taken together, these platforms represent the next step in increasing the utility of top-down.
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Bayesian network models of biological signaling pathways
… the structure of a signaling pathway, from high-throughput data. We apply Bayesian network structure inference to signaling protein measurements performed in thousands of single cells, using a machine called a flow cytorneter. Our de novo reconstruction of a T-cell signaling map was highly …
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Transcriptional regulation of metabolism and behavior: insights from reconstruction and modeling of complex biochemical networks
… omics experiments are now generating a wealth of data on these various processes. As a result, there is a critical need for methods that rapidly transform these high-throughput data into predictive models for medicine and bioengineering. These predictive models need to seamlessly integrate …
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Theory and Applications of Matrix Completion in Genomics Datasets
… and sequencing technologies has enabled high-throughput data collection, opening the door to improvements in drug discovery, disease identification, and personalized medicine, among others. The size and scope of such datasets is unprecedented, and their increased availability over the …
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Large, noisy, and incomplete : mathematics for modern biology
… largely been driven by the massive in flux of data from new experimental technologies, particularly high-throughput sequencing and array-based data. These new data sources require both computational power and new mathematics to properly piece them apart. This thesis discusses two problems in …
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Determinants of translational efficiency in Saccharomyces cerevisiae
… or developmental cues. Despite this influx of high-throughput data, the mechanisms underlying the differences in gene-specific and condition-dependent TE remain largely unknown. In this thesis, I describe the roles of two different components of the translational machinery in regulating …
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Efficient enzyme coupling algorithms identify functional pathways in genome-scale metabolic models
… and 3.) identify sets of important enzymes using high-throughput data. We present three computational tools to improve the efficiency, applicability, and biological interpretability of flux coupling analysis. The first algorithm (cachedFCF) uses information from intermediate solutions to decrease …
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In silico cell biology and biochemistry: a systems biology approach
In the post-"omic" era the analysis of high-throughput data is regarded as one of the major challenges faced by researchers. One focus of this data analysis is uncovering biological network topologies and dynamics. It is believed that this kind of research will allow the development of new …
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Dissecting Transcriptional Regulatory Networks with Systems Biology Approaches
… ChIP-on-chip have generated a large amount of high-throughput data for biologists. Although these data has provided us systems-level information about gene regulation, a major challenge in systems biology is to derive methodologies that will infer the underlying dynamics and mechanisms of gene …
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Comprehensive analysis of high-throughput experiments for investigating transcription and transcriptional regulation
… to answer these questions frequently make use of high-throughput technologies that allow for investigation of multiple genomic regions, or transcribed copies of genomic regions, in parallel. In this dissertation, I present three high-throughput studies I have been involved in, in which data gained …
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Rethinking Storage System Design in Distributed NVRAM+RDMA Clusters
… provide new opportunities for creating scalable high-throughput data management systems with low latency and strong consistency guarantees. In this thesis, we investigate the design space for distributed storage systems based on these emerging technologies. The design focuses on three components: …
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Network Inference Using Independence Criteria
… models using network inference algorithms from high-throughput data, for example; from gene or protein expression data. A wide variety of network inference algorithms have been designed and implemented. Our aim is to explore the possibilities of using statistical independence criteria for …
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Revealing disease-associated pathways and components by systematic integration of large-scale biological data
… of thousands of molecules simultaneously, the data from each technology can only show a single-view of biological processes. Capturing a complete picture of these processes requires integrating data of different types, including clinical data, genomics, transcriptomics, proteomics and …
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The complexity of bioinformatics: techniques for addressing the combinatorial explosion in proteomics and genomics
The last decade has seen an explosion of data arising from the development and proliferation of high-throughput data gathering and analysis pipelines. In order to transform this data into useful hypotheses and conclusions, it is necessary to determine which of it is pertinent to the problem being …
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