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Showing 1 to 20 of 83 for “"single cell transcriptomics"”.
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Multivariate Statistical Analysis In Single Cell Transcriptomics
With technological advances in the last decade, single cell RNA sequencing (scRNAseq) has emerged as an exciting weapon in the modern scientist’s arsenal to unravel cellular heterogeneity. The ability to measure the transcriptome in each individual cell in any given tissue poses challenges galore, …
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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 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 transcriptomics of the mouse thalamic reticular nucleus
… computational framework to analyze the single-nucleus RNA sequencing data of mouse TRN in a data-driven manner. By combining transcriptomic, genetic, and functional proteomic data, I discovered novel insights into the molecular mechanisms through which TRN regulates sensory gating, and …
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Integrating Bulk and Single-Cell Transcriptomics to Investigate Intratumor Heterogeneity
… heterogeneous mixtures of tumor and surrounding cells, where each component comprises multiple distinct sub-types and/or states. Understanding the cell-type-specific contributions is critical for advancing cancer biology, yet high-throughput expression profiles from tumor tissues only represent …
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Understanding transcriptional regulation through computational analysis of single-cell transcriptomics
… average gene expression across large pools of cells. In contrast, recent technological improvements have made it possible to perform expression profiling in single cells. Single-cell expression profiling is able to capture heterogeneity among single cells, which is not possible in conventional …
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Using single cell transcriptomics to characterise endothelial populations in embryonic haematopoiesis
Haematopoietic stem cells (HSCs) possess the unique ability to reconstitute an animal’s entire haematopoietic system. As such, it is inherently interesting to the fields of regenerative medicine and developmental biology to understand how these cells first form in the embryo. Haematopoietic stem …
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Understanding Developmental Decision Making in Malaria Parasites using Single-Cell Transcriptomics
Single-cell sequencing has the potential to revolutionise our understanding of malaria parasites. Malaria is caused by single-celled parasitic organisms of the genus Plasmodium which display remarkable cellular plasticity during their complex life cycle with large variations in size (1.2 to 50 μm) …
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Towards Network-Guided Large-Scale Foundation Models on Single-Cell Transcriptomics
… transformer-based foundation models tailored for single-cell RNA sequencing (scRNA-seq) data have shown significant potential in interpreting the 'languages' of cells through self-supervised learning on huge amounts of unlabeled scRNA-seq datasets. These models could significantly enhance our …
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Single cell transcriptomics of the retinal vascular endothelium in health and diabetes
The endothelial cells that line retinal blood vessels play vital roles in angiogenesis and microvascular barrier formation and are supported by retinal mural cells. When these cells become dysfunctional during diabetes, they can lead to sight threatening complications such as diabetic retinopathy …
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ACME and SPLiT-seq: Quantitative and evolutionary single-cell transcriptomics in planarians
… thesis begins by recapitulating the history of transcriptomics, from its early years to the development of modern single-cell protocols, in order to understand the evolution and current state of the field. During the experimental part, I focus on the description and validation of a versatile …
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Cross-species single-cell transcriptomics and its applications in evolutionary and translational research
Single-cell transcriptomics has emerged as a powerful technology to characterise gene expression within individual cells. Over the last 5 years, as the technology has matured, single-cell techniques have been used to profile cells in species across the tree of life. The availability of single-cell …
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Scalable Machine Learning Methods For The Analysis Of Single-Cell Transcriptomics And Multiomics Data
Transcriptomics and proteomics-based expression profiling technologies have become increasingly popular, more affordable, and more accurate in recent years. Expression profiling of expression at the single-cell resolution allows investigators to identify rare cell subtypes in human tissue which …
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Biological insights into the parasitic nematode Heligmosomoides bakeri from bulk and single-cell transcriptomics
… molting and cuticle synthesis. I then analyzed single-cell RNA-seq data from young adult male and female worms. Leveraging cell type markers from the model nematode C. elegans allowed me to putatively identify gamete, embryo, intestine, hypodermis, neuron, and muscle cells. The resulting cluster …
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BRAIN ORGANOIDS AS MODELLING CONDUITS OF HUMAN NEURODIVERSITY: ADVANCED COMPUTATIONAL APPROACHES TO SINGLE CELL TRANSCRIPTOMICS
… CNS cytoarchitecture. The advent of single cell (SC) RNA sequencing (scRNA-seq) offered the possibility to pair BOs morpho-functional complexity to its molecular characterization. Despite the recent ameliorations of BOs, they are facing two main technological limitations that prevent …
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Mapping Human Liver Development using Single-Cell Transcriptomics to Reveal Pathways Directing Stem Cell Fates
… with non-parenchymal cholangiocytes, endothelial cells, Kupffer cells, and hepatic stellate cells. Disorders affecting hepatocytes are life threatening and increasing in prevalence12, with end-stage treatment relying upon a limited supply of liver donations for transplant. Consequently, the …
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Establishing Image-Based Profiling Methods for Single-Cell Transcriptomics and Morphometrics in the Cephalochordate Amphioxus
… below the diffraction limit of light – at sub-cellular resolution – and in three dimensions, generating such a large volume of imaging data that manual analysis becomes unfeasible. Recent developments in the field of machine learning facilitate high-throughput methodologies for image …
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Using single cell transcriptomics to uncover mechanisms of neural development, neural stem cell quiescence and tumourigenesis
Neural stem cells produce all the cells of the nervous system and regulation of proliferative behaviour is crucial for proper brain development. Over-proliferation of NSCs can also lead to disease, resulting in the formation of tumours. There is a delicate balance between NSC proliferation, …
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