Bibliografias temáticas / Spatial transcriptomic

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Literatura científica selecionada sobre o tema "Spatial transcriptomic"

Autor: Grafiati
Publicado: 21 de setembro de 2024
Última modificação: 17 de junho de 2025

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Teses / dissertações sobre o assunto "Spatial transcriptomic"

1

Larsson, Ludvig. "Optimization of UMI counting strategies for Spatial Transcriptomics." Thesis, KTH, Skolan för kemi, bioteknologi och hälsa (CBH), 2018. http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-233838.

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Spatial Transcriptomics (ST) is a microarray-based RNA sequencing technology that allows for genome-wide transcriptome profiling of tissue sections with spatialresolution, which was published in Science by Ståhl and Salmén et al in 2016. Polyadenylated transcripts are captured on a microarray surface through hybridizationwith a barcoded DNA oligo that carries the information necessary to infer spatialposition and transcript uniqueness from the output sequencing reads. The ST protocolutilizes Unique Molecular Identifiers (UMIs) to remove PCR duplicates and obtain reliable estimates of gene coun
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2

Van, Leen Eric. "On the morphogenesis of the D. melanogaster pupa : a study on gene patterning and tissue folding." Electronic Thesis or Diss., Sorbonne université, 2020. http://www.theses.fr/2020SORUS387.

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Au cours du développement, la coordination des comportements cellulaires est essentielle à la formation d’organes complexes et fonctionnels. L’analyse de ces processus cellulaire est essentielle pour comprendre comment les tissues se forment au cours du développement. Pour ce faire, il est tout d’abord primordial d’identifier les gènes dont l’expression est corrélée avec chacun de ces processus cellulaires. Avec pour modèle la formation de l’épithélium dorsal (le notum) de la pupe de drosophile, mon travail de thèse a visé à identifier les mécanismes moléculaires qui gouvernent la régulation s
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3

Peiffer, Jason, Shail Kaushik, Hajime Sakai, et al. "A spatial dissection of the Arabidopsis floral transcriptome by MPSS." BioMed Central, 2008. http://hdl.handle.net/10150/610079.

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BACKGROUND:We have further characterized floral organ-localized gene expression in the inflorescence of Arabidopsis thaliana by comparison of massively parallel signature sequencing (MPSS) data. Six libraries of RNA sequence tags from immature inflorescence tissues were constructed and matched to their respective loci in the annotated Arabidopsis genome. These signature libraries survey the floral transcriptome of wild-type tissue as well as the floral homeotic mutants, apetala1, apetala3, agamous, a superman/apetala1 double mutant, and differentiated ovules dissected from the gynoecia of wild
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4

Jestin, Martin. "Modifications du microenvironnement stromal après irradiation localisée du côlon : identification de voies moléculaires pour optimiser le processus de régénération épithéliale." Electronic Thesis or Diss., Sorbonne université, 2024. https://accesdistant.sorbonne-universite.fr/login?url=https://theses-intra.sorbonne-universite.fr/2024SORUS165.pdf.

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Les cancers pelviens ont une prévalence élevée et sont principalement traités par radiothérapie. Si elle permet un contrôle de la tumeur, la radiothérapie peut également provoquer des lésions aux tissus sains environnants, entrainant des complications invalidantes définies comme une maladie à part entière, la «Pelvic Radiation Disease» ou PRD. Aujourd'hui, il n'existe pas de traitement curatif pour cette pathologie fibrosante. Ce projet vise à étudier le microenvironnement du côlon après irradiation afin d'identifier, à terme, des cibles thérapeutiques pour la prise en charge des séquelles col
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5

Currás, alonso Sandra. "Lung responses to radiation injury at the single cell level." Electronic Thesis or Diss., Université Paris sciences et lettres, 2021. http://www.theses.fr/2021UPSLS060.

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La radiothérapie constitue une option thérapeutique majeure pour le traitement du cancer du poumon. Néanmoins, la radiothérapie induit chez environ 5 à 20 % des patients traités des toxicités pulmonaires irréversibles précoces et tardives, telles que la pneumonite aiguë ou la fibrose pulmonaire induite par la radiothérapie (FPRI). La FPRI est caractérisée par une destruction progressive et irréversible de l'architecture alvéolaire avec perturbation des échanges gazeux conduisant à la mort des patients. Bien que l'ordre des événements moléculaires et cellulaires dans la progression vers la FPRI
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6

Lötstedt, Britta. "Towards spatial host-microbiome profiling." Licentiate thesis, KTH, Genteknologi, 2021. http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-289384.

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Sequencing technologies and applications have pushed the limits and enabled novel studies of biological mechanisms, evolutionary relationships and communication networks between cells. The technical developments leading to single cell RNA-sequencing have enabled detection of rare cell populations while spatial resolution added insights into larger biological environments, like tissues and organs. Massively parallel sequencing has paved the way for integrated high-throughput analyses including that of studying gene expression, protein expression and mapping of microbial communities. This thesis
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7

Kaewsapsak, Pornchai. "Spatially-resolved transcriptomic mapping in live cells using peroxidase-mediated proximity biotinylation." Thesis, Massachusetts Institute of Technology, 2017. http://hdl.handle.net/1721.1/113972.

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Thesis: Ph. D., Massachusetts Institute of Technology, Department of Chemistry, 2017.<br>Cataloged from PDF version of thesis.<br>Includes bibliographical references.<br>The spatial organization of RNA within cells is crucial for the regulation of a wide range of biological functions, spanning all kingdoms of life. However, a general understanding of RNA localization has been hindered by a lack of simple, high-throughput methods for mapping the transcriptomes of subcellular compartments. Here, we developed two methods, termed APEX-RIP and APEX-Seq. APEX-RIP combines peroxidase-catalyzed, spati
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8

Mignardi, Marco. "In situ Sequencing : Methods for spatially-resolved transcriptome analysis." Doctoral thesis, Stockholms universitet, Institutionen för biokemi och biofysik, 2014. http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-110057.

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It is well known that cells in tissues display a large heterogeneity in gene expression due to differences in cell lineage origin and variation in the local environment at different sites in the tissue, a heterogeneity that is difficult to study by analyzing bulk RNA extracts from tissue. Recently, genome-wide transcriptome analysis technologies have enabled the analysis of this variation with single-cell resolution. In order to link the heterogeneity observed at molecular level with the morphological context of tissues, new methods are needed which achieve an additional level of information,
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9

Vickovic, Sanja. "Transcriptome-wide analysis in cells and tissues." Doctoral thesis, KTH, Genteknologi, 2017. http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-199447.

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High-throughput sequencing has greatly influenced the amount of data produced and biological questions asked and answered. Sequencing approaches have also enabled rapid development of related technological fields such as single-cell and spatially resolved expression profiling. The introductory parts of this thesis give an overview of the basic molecular and technological apparatus needed to analyse the transcriptome in cells and tissues. This is succeeded by a summary of present investigations that report recent advancements in RNA profiling. RNA integrity needs to be preserved for accurate ge
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10

Zhang, Yang. "A visualization interface for spatial pathway regulation data." Thesis, KTH, Skolan för kemi, bioteknologi och hälsa (CBH), 2018. http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-237741.

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Data visualization is an essential methodology for bioinformatics studies. Spatial Transcriptomics(ST) is a method that aims at measuring the transcriptome of tissue sections while maintaining its spacial information. Finally, the study of biological pathway focuses on a series of biochemical reactions that take place in organisms. As these studies generate a large number of datasets, this thesis attempts to combine the ST’s data with pathwayinformation and visualize it in an intuitive way to assist user comprehension and insight.In this thesis, Python was used for integrating the dataset and
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