Spatial components of molecular tissue biology
Methods for profiling RNA and protein expression in a spatially resolved manner are rapidly
evolving, making it possible to comprehensively characterize cells and tissues in health and …
evolving, making it possible to comprehensively characterize cells and tissues in health and …
[HTML][HTML] A guidebook of spatial transcriptomic technologies, data resources and analysis approaches
L Yue, F Liu, J Hu, P Yang, Y Wang, J Dong… - Computational and …, 2023 - Elsevier
Advances in transcriptomic technologies have deepened our understanding of the cellular
gene expression programs of multicellular organisms and provided a theoretical basis for …
gene expression programs of multicellular organisms and provided a theoretical basis for …
Mapping human tissues with highly multiplexed RNA in situ hybridization
K Kalhor, CJ Chen, HS Lee, M Cai, M Nafisi… - Nature …, 2024 - nature.com
In situ transcriptomic techniques promise a holistic view of tissue organization and cell-cell
interactions. There has been a surge of multiplexed RNA in situ mapping techniques but …
interactions. There has been a surge of multiplexed RNA in situ mapping techniques but …
TissUUmaps 3: Improvements in interactive visualization, exploration, and quality assessment of large-scale spatial omics data
Background and objectives Spatially resolved techniques for exploring the molecular
landscape of tissue samples, such as spatial transcriptomics, often result in millions of data …
landscape of tissue samples, such as spatial transcriptomics, often result in millions of data …
Padlock Probe–Based Targeted In Situ Sequencing: Overview of Methods and Applications
A Magoulopoulou, SM Salas, K Tiklová… - Annual Review of …, 2023 - annualreviews.org
Elucidating spatiotemporal changes in gene expression has been an essential goal in
studies of health, development, and disease. In the emerging field of spatially resolved …
studies of health, development, and disease. In the emerging field of spatially resolved …
PoSTcode: Probabilistic image-based spatial transcriptomics decoder
Realising the full potential of novel image-based spatial transcriptomic (IST) technologies
requires robust and accurate algorithms for decoding the hundreds of thousand fluorescent …
requires robust and accurate algorithms for decoding the hundreds of thousand fluorescent …
[PDF][PDF] TissUUmaps 3: interactive visualization and quality assessment of large-scale spatial omics data
TissUUmaps is a browser-based tool for GPU-accelerated visualization and interactive
exploration of 107+ datapoints overlaying tissue samples. Users can visualize markers and …
exploration of 107+ datapoints overlaying tissue samples. Users can visualize markers and …
Blind demixing methods for recovering dense neuronal morphology from barcode imaging data
Cellular barcoding methods offer the exciting possibility of 'infinite-pseudocolor'anatomical
reconstruction—ie, assigning each neuron its own random unique barcoded …
reconstruction—ie, assigning each neuron its own random unique barcoded …
Improved blind demixing methods for recovering dense neuronal morphology from barcode imaging data
Cellular barcoding methods offer the exciting possibility of 'infinite-pseudocolor'anatomical
reconstruction—ie, assigning each neuron its own random unique barcoded …
reconstruction—ie, assigning each neuron its own random unique barcoded …