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merfish (multiplexed error-robust fluorescence in situ hybridization)  (Vizgen Inc)
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Merfish (Multiplexed Error Robust Fluorescence In Situ Hybridization), supplied by Vizgen Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Differential gene expression in SP and SR astrocytes. Transcriptomic analysis of cells in the <t>MERFISH</t> dataset of the Allen Brain Cell Atlas. Reconstruction of probed astrocytes distribution in two- (A) and three-dimensional (B) space, with astrocytes identified as SP, SR, or Peri-SP (SR astrocytes within 20µm of SP). C, SP, Peri-SP, and SR astrocytes were visualized based on gene expression to illustrate heterogeneity between astrocyte populations. D, Gene expression heatmap for 500 genes tested in all cells, with magnified emphasis on select cell-type specific markers to confirm the molecular identity of the cells as astrocytes and not other brain cell types. Rows correspond to genes, columns to cells. E, Diagram showing distribution of 70 enriched genes across astrocyte groups. F, Assessment of expression similarity across astrocyte groups. Top, principal component analysis (PCA) from 70 enriched genes, each dot represents a cell, group centroids depicted by black circle. Bottom, plot of Spearman correlation of mean expression for each enriched gene between astrocyte populations, lighter color represents stronger correlation. G, Volcano plots comparing gene expression between astrocyte groups. Threshold requirement set at p<0.01, |log 2 (x+1) fold change| > 0.5. Top 15 genes with strongest change in expression are identified. H, Summary diagram displaying number of differentially expressed genes (DEGs) across astrocyte groups, illustrating the SP and Peri-SP overlap in DEG relative to SR. I, Dot plot illustrating gene expression level (encoded by circle color) and percentage of cells with transcript expression (encoded by circle diameter). J, Dot plot of ten gene ontology (GO) terms obtained by significant genes considered in SP vs SR, ranked by p value.
Spatial Transcriptomics Multiplexed Error Robust Fluorescence In Situ Hybridization (Merfish), supplied by Spatial Transcriptomics Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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multiplexed error-robust fluorescence in situ hybridization (merfish) dataset  (Vizgen Inc)
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Vizgen Inc multiplexed error-robust fluorescence in situ hybridization (merfish) dataset
Differential gene expression in SP and SR astrocytes. Transcriptomic analysis of cells in the <t>MERFISH</t> dataset of the Allen Brain Cell Atlas. Reconstruction of probed astrocytes distribution in two- (A) and three-dimensional (B) space, with astrocytes identified as SP, SR, or Peri-SP (SR astrocytes within 20µm of SP). C, SP, Peri-SP, and SR astrocytes were visualized based on gene expression to illustrate heterogeneity between astrocyte populations. D, Gene expression heatmap for 500 genes tested in all cells, with magnified emphasis on select cell-type specific markers to confirm the molecular identity of the cells as astrocytes and not other brain cell types. Rows correspond to genes, columns to cells. E, Diagram showing distribution of 70 enriched genes across astrocyte groups. F, Assessment of expression similarity across astrocyte groups. Top, principal component analysis (PCA) from 70 enriched genes, each dot represents a cell, group centroids depicted by black circle. Bottom, plot of Spearman correlation of mean expression for each enriched gene between astrocyte populations, lighter color represents stronger correlation. G, Volcano plots comparing gene expression between astrocyte groups. Threshold requirement set at p<0.01, |log 2 (x+1) fold change| > 0.5. Top 15 genes with strongest change in expression are identified. H, Summary diagram displaying number of differentially expressed genes (DEGs) across astrocyte groups, illustrating the SP and Peri-SP overlap in DEG relative to SR. I, Dot plot illustrating gene expression level (encoded by circle color) and percentage of cells with transcript expression (encoded by circle diameter). J, Dot plot of ten gene ontology (GO) terms obtained by significant genes considered in SP vs SR, ranked by p value.
Multiplexed Error Robust Fluorescence In Situ Hybridization (Merfish) Dataset, supplied by Vizgen Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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multiplexed error robust fluorescence situ hybridization (merfish  (Vizgen Inc)
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Vizgen Inc multiplexed error robust fluorescence situ hybridization (merfish
Differential gene expression in SP and SR astrocytes. Transcriptomic analysis of cells in the <t>MERFISH</t> dataset of the Allen Brain Cell Atlas. Reconstruction of probed astrocytes distribution in two- (A) and three-dimensional (B) space, with astrocytes identified as SP, SR, or Peri-SP (SR astrocytes within 20µm of SP). C, SP, Peri-SP, and SR astrocytes were visualized based on gene expression to illustrate heterogeneity between astrocyte populations. D, Gene expression heatmap for 500 genes tested in all cells, with magnified emphasis on select cell-type specific markers to confirm the molecular identity of the cells as astrocytes and not other brain cell types. Rows correspond to genes, columns to cells. E, Diagram showing distribution of 70 enriched genes across astrocyte groups. F, Assessment of expression similarity across astrocyte groups. Top, principal component analysis (PCA) from 70 enriched genes, each dot represents a cell, group centroids depicted by black circle. Bottom, plot of Spearman correlation of mean expression for each enriched gene between astrocyte populations, lighter color represents stronger correlation. G, Volcano plots comparing gene expression between astrocyte groups. Threshold requirement set at p<0.01, |log 2 (x+1) fold change| > 0.5. Top 15 genes with strongest change in expression are identified. H, Summary diagram displaying number of differentially expressed genes (DEGs) across astrocyte groups, illustrating the SP and Peri-SP overlap in DEG relative to SR. I, Dot plot illustrating gene expression level (encoded by circle color) and percentage of cells with transcript expression (encoded by circle diameter). J, Dot plot of ten gene ontology (GO) terms obtained by significant genes considered in SP vs SR, ranked by p value.
Multiplexed Error Robust Fluorescence Situ Hybridization (Merfish, supplied by Vizgen Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/multiplexed+error-robust+fluorescence+situ+hybridization+%28merfish/pm39667347-117-18-49?v=Vizgen+Inc
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multiplexed error robust fluorescence situ hybridization (merfish - by Bioz Stars, 2026-07
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merfish (multiplexed error-robust fluorescence in situ hybridization) vizgen platform  (Vizgen Inc)
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Differential gene expression in SP and SR astrocytes. Transcriptomic analysis of cells in the <t>MERFISH</t> dataset of the Allen Brain Cell Atlas. Reconstruction of probed astrocytes distribution in two- (A) and three-dimensional (B) space, with astrocytes identified as SP, SR, or Peri-SP (SR astrocytes within 20µm of SP). C, SP, Peri-SP, and SR astrocytes were visualized based on gene expression to illustrate heterogeneity between astrocyte populations. D, Gene expression heatmap for 500 genes tested in all cells, with magnified emphasis on select cell-type specific markers to confirm the molecular identity of the cells as astrocytes and not other brain cell types. Rows correspond to genes, columns to cells. E, Diagram showing distribution of 70 enriched genes across astrocyte groups. F, Assessment of expression similarity across astrocyte groups. Top, principal component analysis (PCA) from 70 enriched genes, each dot represents a cell, group centroids depicted by black circle. Bottom, plot of Spearman correlation of mean expression for each enriched gene between astrocyte populations, lighter color represents stronger correlation. G, Volcano plots comparing gene expression between astrocyte groups. Threshold requirement set at p<0.01, |log 2 (x+1) fold change| > 0.5. Top 15 genes with strongest change in expression are identified. H, Summary diagram displaying number of differentially expressed genes (DEGs) across astrocyte groups, illustrating the SP and Peri-SP overlap in DEG relative to SR. I, Dot plot illustrating gene expression level (encoded by circle color) and percentage of cells with transcript expression (encoded by circle diameter). J, Dot plot of ten gene ontology (GO) terms obtained by significant genes considered in SP vs SR, ranked by p value.
Merfish (Multiplexed Error Robust Fluorescence In Situ Hybridization) Vizgen Platform, supplied by Vizgen Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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multiplex error-robust fluorescence in situ hybridization merfish  (Vizgen Inc)
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Vizgen Inc multiplex error-robust fluorescence in situ hybridization merfish
Differential gene expression in SP and SR astrocytes. Transcriptomic analysis of cells in the <t>MERFISH</t> dataset of the Allen Brain Cell Atlas. Reconstruction of probed astrocytes distribution in two- (A) and three-dimensional (B) space, with astrocytes identified as SP, SR, or Peri-SP (SR astrocytes within 20µm of SP). C, SP, Peri-SP, and SR astrocytes were visualized based on gene expression to illustrate heterogeneity between astrocyte populations. D, Gene expression heatmap for 500 genes tested in all cells, with magnified emphasis on select cell-type specific markers to confirm the molecular identity of the cells as astrocytes and not other brain cell types. Rows correspond to genes, columns to cells. E, Diagram showing distribution of 70 enriched genes across astrocyte groups. F, Assessment of expression similarity across astrocyte groups. Top, principal component analysis (PCA) from 70 enriched genes, each dot represents a cell, group centroids depicted by black circle. Bottom, plot of Spearman correlation of mean expression for each enriched gene between astrocyte populations, lighter color represents stronger correlation. G, Volcano plots comparing gene expression between astrocyte groups. Threshold requirement set at p<0.01, |log 2 (x+1) fold change| > 0.5. Top 15 genes with strongest change in expression are identified. H, Summary diagram displaying number of differentially expressed genes (DEGs) across astrocyte groups, illustrating the SP and Peri-SP overlap in DEG relative to SR. I, Dot plot illustrating gene expression level (encoded by circle color) and percentage of cells with transcript expression (encoded by circle diameter). J, Dot plot of ten gene ontology (GO) terms obtained by significant genes considered in SP vs SR, ranked by p value.
Multiplex Error Robust Fluorescence In Situ Hybridization Merfish, supplied by Vizgen Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/multiplexed+error-robust+fluorescence+situ+hybridization+%28merfish/pmc11324018-184-1-9?v=Vizgen+Inc
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multiplexed error-robust fluorescence in situ hybridization “merfish  (Vizgen Inc)
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Vizgen Inc multiplexed error-robust fluorescence in situ hybridization “merfish
Differential gene expression in SP and SR astrocytes. Transcriptomic analysis of cells in the <t>MERFISH</t> dataset of the Allen Brain Cell Atlas. Reconstruction of probed astrocytes distribution in two- (A) and three-dimensional (B) space, with astrocytes identified as SP, SR, or Peri-SP (SR astrocytes within 20µm of SP). C, SP, Peri-SP, and SR astrocytes were visualized based on gene expression to illustrate heterogeneity between astrocyte populations. D, Gene expression heatmap for 500 genes tested in all cells, with magnified emphasis on select cell-type specific markers to confirm the molecular identity of the cells as astrocytes and not other brain cell types. Rows correspond to genes, columns to cells. E, Diagram showing distribution of 70 enriched genes across astrocyte groups. F, Assessment of expression similarity across astrocyte groups. Top, principal component analysis (PCA) from 70 enriched genes, each dot represents a cell, group centroids depicted by black circle. Bottom, plot of Spearman correlation of mean expression for each enriched gene between astrocyte populations, lighter color represents stronger correlation. G, Volcano plots comparing gene expression between astrocyte groups. Threshold requirement set at p<0.01, |log 2 (x+1) fold change| > 0.5. Top 15 genes with strongest change in expression are identified. H, Summary diagram displaying number of differentially expressed genes (DEGs) across astrocyte groups, illustrating the SP and Peri-SP overlap in DEG relative to SR. I, Dot plot illustrating gene expression level (encoded by circle color) and percentage of cells with transcript expression (encoded by circle diameter). J, Dot plot of ten gene ontology (GO) terms obtained by significant genes considered in SP vs SR, ranked by p value.
Multiplexed Error Robust Fluorescence In Situ Hybridization “Merfish, supplied by Vizgen Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/multiplexed+error-robust+fluorescence+situ+hybridization+%28merfish/pm38997326-344-16-0?v=Vizgen+Inc
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multiplexed error-robust fluorescence in situ hybridization “merfish - by Bioz Stars, 2026-07
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Differential gene expression in SP and SR astrocytes. Transcriptomic analysis of cells in the MERFISH dataset of the Allen Brain Cell Atlas. Reconstruction of probed astrocytes distribution in two- (A) and three-dimensional (B) space, with astrocytes identified as SP, SR, or Peri-SP (SR astrocytes within 20µm of SP). C, SP, Peri-SP, and SR astrocytes were visualized based on gene expression to illustrate heterogeneity between astrocyte populations. D, Gene expression heatmap for 500 genes tested in all cells, with magnified emphasis on select cell-type specific markers to confirm the molecular identity of the cells as astrocytes and not other brain cell types. Rows correspond to genes, columns to cells. E, Diagram showing distribution of 70 enriched genes across astrocyte groups. F, Assessment of expression similarity across astrocyte groups. Top, principal component analysis (PCA) from 70 enriched genes, each dot represents a cell, group centroids depicted by black circle. Bottom, plot of Spearman correlation of mean expression for each enriched gene between astrocyte populations, lighter color represents stronger correlation. G, Volcano plots comparing gene expression between astrocyte groups. Threshold requirement set at p<0.01, |log 2 (x+1) fold change| > 0.5. Top 15 genes with strongest change in expression are identified. H, Summary diagram displaying number of differentially expressed genes (DEGs) across astrocyte groups, illustrating the SP and Peri-SP overlap in DEG relative to SR. I, Dot plot illustrating gene expression level (encoded by circle color) and percentage of cells with transcript expression (encoded by circle diameter). J, Dot plot of ten gene ontology (GO) terms obtained by significant genes considered in SP vs SR, ranked by p value.

Journal: bioRxiv

Article Title: Distinct subtypes of astrocytes selectively regulate specific inhibitory synapses

doi: 10.1101/2025.05.16.654545

Figure Lengend Snippet: Differential gene expression in SP and SR astrocytes. Transcriptomic analysis of cells in the MERFISH dataset of the Allen Brain Cell Atlas. Reconstruction of probed astrocytes distribution in two- (A) and three-dimensional (B) space, with astrocytes identified as SP, SR, or Peri-SP (SR astrocytes within 20µm of SP). C, SP, Peri-SP, and SR astrocytes were visualized based on gene expression to illustrate heterogeneity between astrocyte populations. D, Gene expression heatmap for 500 genes tested in all cells, with magnified emphasis on select cell-type specific markers to confirm the molecular identity of the cells as astrocytes and not other brain cell types. Rows correspond to genes, columns to cells. E, Diagram showing distribution of 70 enriched genes across astrocyte groups. F, Assessment of expression similarity across astrocyte groups. Top, principal component analysis (PCA) from 70 enriched genes, each dot represents a cell, group centroids depicted by black circle. Bottom, plot of Spearman correlation of mean expression for each enriched gene between astrocyte populations, lighter color represents stronger correlation. G, Volcano plots comparing gene expression between astrocyte groups. Threshold requirement set at p<0.01, |log 2 (x+1) fold change| > 0.5. Top 15 genes with strongest change in expression are identified. H, Summary diagram displaying number of differentially expressed genes (DEGs) across astrocyte groups, illustrating the SP and Peri-SP overlap in DEG relative to SR. I, Dot plot illustrating gene expression level (encoded by circle color) and percentage of cells with transcript expression (encoded by circle diameter). J, Dot plot of ten gene ontology (GO) terms obtained by significant genes considered in SP vs SR, ranked by p value.

Article Snippet: Spatial transcriptomics multiplexed error-robust fluorescence in situ hybridization (MERFISH) data were analyzed from the Allen Brain Cell (ABC) Atlas hosted on the Allen Institute AWS S3 repository using a dataset and metadata comprising 500 genes in 4 million cells across a single adult male C57BL/6J mouse brain (data version 20230830, metadata version 20241115; https://alleninstitute.github.io/abc_atlas_access/descriptions/MERFISH-C57BL6J-638850.html ).

Techniques: Gene Expression, Expressing