HNSCC scRNA-seq

Cell information vs gene expression on reduced dimensions

In this tab, users can visualise both cell information and gene expression side-by-side on low-dimensional representions.

Dimension Reduction

Cell information

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Gene expression

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Cell information vs cell information on dimension reduction

In this tab, users can visualise two cell informations side-by-side on low-dimensional representions.

Dimension Reduction

Cell information 1

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Cell information 2

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Gene expression vs gene expression on dimension reduction

In this tab, users can visualise two gene expressions side-by-side on low-dimensional representions.

Dimension Reduction

Gene expression 1

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Gene expression 2

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Cell information / gene expression violin plot / box plot

In this tab, users can visualise the gene expression or continuous cell information (e.g. Number of UMIs / module score) across groups of cells (e.g. libary / clusters).

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Gene expression bubbleplot / heatmap

In this tab, users can visualise the gene expression patterns of multiple genes grouped by categorical cell information (e.g. library / cluster).
The normalised expression are averaged, log-transformed and then plotted.


Download PDF Download PNG

Cell information vs gene expression on reduced dimensions

In this tab, users can visualise both cell information and gene expression side-by-side on low-dimensional representions.

Dimension Reduction

Cell information

Download PDF Download PNG

Gene expression

Download PDF Download PNG

Cell information vs cell information on dimension reduction

In this tab, users can visualise two cell informations side-by-side on low-dimensional representions.

Dimension Reduction

Cell information 1

Download PDF Download PNG

Cell information 2

Download PDF Download PNG

Gene expression vs gene expression on dimension reduction

In this tab, users can visualise two gene expressions side-by-side on low-dimensional representions.

Dimension Reduction

Gene expression 1

Download PDF Download PNG

Gene expression 2

Download PDF Download PNG

Cell information / gene expression violin plot / box plot

In this tab, users can visualise the gene expression or continuous cell information (e.g. Number of UMIs / module score) across groups of cells (e.g. libary / clusters).

Download PDF Download PNG

Gene expression bubbleplot / heatmap

In this tab, users can visualise the gene expression patterns of multiple genes grouped by categorical cell information (e.g. library / cluster).
The normalised expression are averaged, log-transformed and then plotted.


Download PDF Download PNG

Reference: Liu X., Ouyang J.F., Rossello F.J. et al. Nature 586, 101-107 (2020) doi:10.1038/s41586-020-2734-6

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