p56 mouse brain coronal section Search Results


p56 mouse brain coronal section  (Allen Institute for Brain Science)
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Allen Institute for Brain Science p56 mouse brain coronal section
a Annotation of <t>P56</t> mouse brain coronal sections from the Allen Brain Atlas. b Manual annotation of tissue from P22 mouse brain coronal sections in Zhang et al., overlaid on the image from a . c Comparison of domain segmentation results from five algorithms. Note that SpaMultiVAE was excluded as it is not designed for ATAC-RNA multi-omics data analysis. d Distribution of modality weights for RNA and ATAC in COSMOS analysis. e UMAP visualizations of integrated embeddings produced by SpatialGlue and COSMOS. f Pseudo-spatiotemporal maps (pSM) generated by SpatialGlue and COSMOS. ( g) Gene Ontology Biological Process (GOBP) analysis of genes associated with pseudo-time. h Gene expression profiles for the top 15 positive and 15 negative pSM-associated genes. i Spatial mapping of gene expressions for brain development genes negatively ( Nexn, Bcl11b, Mbp ) and positively ( Nfix, Mef2c, Cux2 ) correlated with pseudo-time, as identified by COSMOS. The full names of the abbreviations of brain regions are: nucleus accumbens (ACB), caudoputamen (CP), lateral ventricle (VL), genu of corpus callosum (ccg) and anterior commissure olfactory limb (aco). Source data are provided as a Source Data file.
P56 Mouse Brain Coronal Section, supplied by Allen Institute for Brain Science, 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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a Annotation of P56 mouse brain coronal sections from the Allen Brain Atlas. b Manual annotation of tissue from P22 mouse brain coronal sections in Zhang et al., overlaid on the image from a . c Comparison of domain segmentation results from five algorithms. Note that SpaMultiVAE was excluded as it is not designed for ATAC-RNA multi-omics data analysis. d Distribution of modality weights for RNA and ATAC in COSMOS analysis. e UMAP visualizations of integrated embeddings produced by SpatialGlue and COSMOS. f Pseudo-spatiotemporal maps (pSM) generated by SpatialGlue and COSMOS. ( g) Gene Ontology Biological Process (GOBP) analysis of genes associated with pseudo-time. h Gene expression profiles for the top 15 positive and 15 negative pSM-associated genes. i Spatial mapping of gene expressions for brain development genes negatively ( Nexn, Bcl11b, Mbp ) and positively ( Nfix, Mef2c, Cux2 ) correlated with pseudo-time, as identified by COSMOS. The full names of the abbreviations of brain regions are: nucleus accumbens (ACB), caudoputamen (CP), lateral ventricle (VL), genu of corpus callosum (ccg) and anterior commissure olfactory limb (aco). Source data are provided as a Source Data file.

Journal: Nature Communications

Article Title: Cooperative integration of spatially resolved multi-omics data with COSMOS

doi: 10.1038/s41467-024-55204-y

Figure Lengend Snippet: a Annotation of P56 mouse brain coronal sections from the Allen Brain Atlas. b Manual annotation of tissue from P22 mouse brain coronal sections in Zhang et al., overlaid on the image from a . c Comparison of domain segmentation results from five algorithms. Note that SpaMultiVAE was excluded as it is not designed for ATAC-RNA multi-omics data analysis. d Distribution of modality weights for RNA and ATAC in COSMOS analysis. e UMAP visualizations of integrated embeddings produced by SpatialGlue and COSMOS. f Pseudo-spatiotemporal maps (pSM) generated by SpatialGlue and COSMOS. ( g) Gene Ontology Biological Process (GOBP) analysis of genes associated with pseudo-time. h Gene expression profiles for the top 15 positive and 15 negative pSM-associated genes. i Spatial mapping of gene expressions for brain development genes negatively ( Nexn, Bcl11b, Mbp ) and positively ( Nfix, Mef2c, Cux2 ) correlated with pseudo-time, as identified by COSMOS. The full names of the abbreviations of brain regions are: nucleus accumbens (ACB), caudoputamen (CP), lateral ventricle (VL), genu of corpus callosum (ccg) and anterior commissure olfactory limb (aco). Source data are provided as a Source Data file.

Article Snippet: The reference of mouse brain ATAC-RNA data is obtained from a P56 mouse brain coronal section from Allen Mouse Brain Atlas (Allen Institute for Brain Science: https://mouse.brain-map.org/static/atlas ).

Techniques: Comparison, Biomarker Discovery, Produced, Generated, Gene Expression