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 499 for “"transcriptomics"”.
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Investigating Extreme Lifestyles Through Mangrove Transcriptomics
I have characterized phenylalanine ammonia-lyase (PAL), chalcone synthase (CHS), and dihydroflavonol reductase (DFR) gene families in R. mangle , which are at major regulatpry points in the phenylpropanoid pathway. I have identified one DFR, two CHS, and ten PAL genes in R. mangle . Differential …
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Developing software for compressed imaging transcriptomics
… using fluorescence microscopy (i.e. imaging transcriptomics). In order to make this technique more accessible and user-friendly, we built CISIpy, an open-source software system that implements the pipeline's computational aspects. This system is designed to enable efficient compressed sensing …
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Microfluidic platforms for Transcriptomics and Epigenomics
A cell, the building block of all life, stores a plethora of information in its genome, epigenome, and transcriptome which needs to be analyzed via various Omic studies. The heterogeneity in a seemingly similar group of cells is an important factor to consider and it could lead us to better …
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Multivariate Statistical Analysis In Single Cell Transcriptomics
… and provides a basic overview of the single cell transcriptomics field, specifically focusing on the questions motivated by a molecular snapshot of individual cells. In Chapter 2, we tackle the philosophical notion of similarity, and introduce a rank-based function on probability spaces that can …
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Transcriptomics-Guided Biodiscovery of Peroxidases from Macroalgae
… novel biocatalysts. The aim of this work was the transcriptomics-guided identification and characterization of novel enzymes, particularly peroxidases, from macroalgae. Adaptable RNA extraction protocols were developed for green, red, and brown algae, as well as seagrass and cyanobacteria. Using a …
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Quantitative spatial transcriptomics of the developing brain
… analytical tools to derive ‘Quantitative Spatial Transcriptomics (QST)’ for the spatiotemporal characterisation of gene expression across the developing mammalian forebrain. My thesis research has focused in two main areas: 1) Novel methodology for insights into mammalian cortex architecture: I …
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Tuberculosis transcriptomics: host protection and immune evasion mechanisms
Mycobacterium tuberculosis (Mtb) is the leading cause of death from an infectious disease. The success of the pathogen lies in its ability to subvert hostile intracellular macrophage environment. We performed genome-wide transcriptional deep sequencing on total RNA in murine bone marrow-derived …
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Single Cell Transcriptomics and Spatial Localization in Mouse Neurons
Neurons are complex cells whose primary functions are to send and receive electrochemical signals to and from other neurons in their connected network. Though their primary functions are similar, neurons are spatially and functionally specialized across a wide array of neuronal subtypes. …
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Comparative transcriptomics of long intergenic noncoding RNAs in Drosophila
Without the constraints of the amino acid code, long intergenic noncoding RNAs (lincRNAs) can be expected to evolve along different trajectories than protein-coding genes. Most studies of lincRNA evolution analyze evolution only at the sequence level without ascertaining whether the lincRNA is …
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Widescale analysis of transcriptomics data using cloud computing methods
This study explores the handling and analyzing of big data in the field of bioinformatics. The focus has been on improving the analysis of public domain data for Affymetrix GeneChips which are a widely used technology for measuring gene expression. Methods to determine the bias in gene expression …
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Comparative single-cell transcriptomics of complete insect nervous systems
The brain is made of many types of specialized cells. Information processing in these cells is responsible for generating innate and learnt behaviour. Gene expression, neuron activity, and neuron connectivity influence information processing, but bridging the gap between genes, circuits and …
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Computational reconstruction of mouse development using single cell transcriptomics
Single cell transcriptomics has significantly contributed to our understanding of cell types across species, organs and developmental processes. The rapid development of technologies, protocols and computational methods reflects a highly dynamic field over constant improvement. Particularly for …
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Single-Cell Language Model for Transcriptomics & Cell Type Annotation
As single-cell transcriptomics datasets continue to grow in size and biological complexity, current models for cell type annotation remain limited in their generalizability and are often evaluated on only a small fraction of the standardized cell types defined in modern ontologies. Current …
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Single-cell transcriptomics of the mouse thalamic reticular nucleus
The thalamic reticular nucleus (TRN) is strategically located at the interface between the cortex and the thalamus, and plays a key role in regulating thalamo-cortical interactions. Current understanding of TRN neurobiology has been limited due to the lack of a comprehensive survey of TRN …
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Spatially precise in situ transcriptomics in intact biological systems
Biological tissues are composed of cells of diverse types and states that are spatially organized with nanoscale precision over extended length scales to perform coordinated functions. Understanding patterns of gene expression in tissues is needed to understand complex cellular behaviors in health …
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Fundamental representations of regions and interactions in spatial transcriptomics
… underlying both health and disease. Spatial transcriptomics technologies offer a unique window into this coordination by simultaneously capturing the spatial and molecular identities of individual cells, providing unprecedented insight into tissue organization. However, the computational …
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Integrating Bulk and Single-Cell Transcriptomics to Investigate Intratumor Heterogeneity
… and limitations of single-cell and bulk transcriptomics. These findings motivate the need for integrative frameworks that account for both technical artifacts and biological heterogeneity.</p>
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Understanding transcriptional regulation through computational analysis of single-cell transcriptomics
Gene expression is tightly regulated by complex transcriptional regulatory mechanisms to achieve specific expression patterns, which are essential to facilitate important biological processes such as embryonic development. Dysregulation of gene expression can lead to diseases such as cancers. A …
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Computational and Statistical Methods for Analysis of Spatial Transcriptomics Data
Spatial transcriptomics technologies are an emerging class of high-throughput sequencing methodologies for measuring gene expression at near single-cell resolution at spatiallydefined measurement spots across a biological tissue. We show how measuring cells in their native environment has the …
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