image image | caption string | subfigures list |
|---|---|---|
The relationship between prognosis and clinicopathological parameters in four independent cohorts (*p < 0.05; **p < 0.01; ***p < 0.001). (A-D) The distribution of AMI, biochemical recurrence status along with bRFS times of PCa patients and heatmaps of 8 key prognostic AME regulators. (E-H) Kaplan-Meier survival curves ... | [
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"caption": "The relationship between prognosis and clinicopathological parameters in four independent cohorts (*p < 0.05; **p < 0.01; ***p < 0.001). The distribution of AMI, biochemical recurrence status along... | |
SR-DGN identifies complex tissue structures in the Slide-seqV2 mouse hippocampus dataset. (A) Annotation of the Slide-seqV2 mouse hippocampus structure from the Allen Reference Atlas. (B) Spatial clustering results of SR-DGN, SCANPY, STAGATE, GraphST, SpaceFlow, and SEDR in the Slide-seqV2 mouse hippocampus dataset. (C... | [
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"caption": "SR-DGN identifies complex tissue structures in the Slide-seqV2 mouse hippocampus dataset. Violin plots of the two genes."
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Cell-type deconvolution results for 10X Visium human breast cancer (block A section 1) data. a Scatter pie plots displaying the cell-type proportion estimates of SpaDecon, RCTD, SPOTlight, Stereoscope, and cell2location at each spot, along with heatmaps showing the estimated distributions of cancer epithelial, B, and T... | [
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"caption": "Cell-type deconvolution results for 10X Visium human breast cancer (block A section 1) data. Low-resolution histology image of breast cancer tissue section from which Visium data were ... | |
Mapping of gene signatures ER stress and immune cells on CRC ST data. (A) The enrichment score of GOBP_RESPONSE_TO_ENDOPLASMIC_RETICULUM_STRESS gene set on ST data; the dotted line represents the tumor region. (B) Enrichment score of DEGs between ERcluster A and B on ST data. (C–F) Enrichment score of FOXP3+ Treg, CAFs... | [
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"caption": "Mapping of gene signatures ER stress and immune cells on CRC ST data. Enrichment score of MDSC signature on ST data."
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Deconvolution methods performance on different reference and bulk datasets. Bar plots comparing the features of the three snRNA-seq datasets used as references in deconvolution, noting: A. number of donors and diagnosis, B. total number of nuclei, and C. overall cell type composition. D. Scatter plot of cell type propo... | [
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"caption": "Deconvolution methods performance on different reference and bulk datasets. Scatter plot of cell type proportions estimated by RNAScope/IF (x-axis) vs. the predicted cell type p... | |
Dimensionality Reduction and Clustering. A) UMAP of integrated samples displaying 7 clusters identified in the merged and integrated PT #1 & PT #2 samples. B) Visualization of integrated clusters projected onto each sample identity. PT#1 is on the left and PT#2 is on the right. C) Heatmap of the top three upregulated (... | [
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"caption": "Dimensionality Reduction and Clustering. UMAP of integrated samples displaying 7 clusters identified in the merged and integrated PT #1 & PT #2 samples."
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GeneSurfer is an interactive interface for exploring local gene expression patterns in the spatial domain. A. Overview of the proposed workflow. Users select transcriptomically similar cells and visualize them in 3D. Genes are filtered and then clustered based on their expression within the selected cells. GO terms are... | [
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"caption": "GeneSurfer is an interactive interface for exploring local gene expression patterns in the spatial domain. Overview of the proposed workflow. Users select transcriptomically similar cells and visualize them i... | |
STRING as well as upstream regulator analyses cluster around inflammatory processes during the priming phase of human LR. (A) STRING analyses (including only significantly regulated genes with a fold change of >1.5) are illustrated for individuals with and without postoperative DLR and colour coded according to the deg... | [
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"caption": "STRING as well as upstream regulator analyses cluster around inflammatory processes during the priming phase of human LR. IPA upstream regulator assessment is illustrated for individuals ... | |
Single-cell sequencing analysis of SPP1 expression in relation to CAF infiltration. (A): Annotated UMAP clustering map for single-cell objects. (B): Identification of classical marker gene expression levels across various cell types. (C): Bar chart showing the percentage of cell types within the 12 samples in a single-... | [
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"caption": "Single-cell sequencing analysis of SPP1 expression in relation to CAF infiltration. Violin plots displaying SPP1 expression in different cell types."
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0... | |
Spatial transcriptomic analysis of estrogen-receptor-positive and triple-negative breast cancer patients (A) Scatterplot showing the position of the estrogen-receptor-positive (ER+) and triple-negative breast cancer (TNBC) patients on a two-dimensional luminal-basal plane. Each point in the plane is based on the gene e... | [
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"caption": "Spatial transcriptomic analysis of estrogen-receptor-positive and triple-negative breast cancer patients. Scatterplot showing the position of the estrogen-receptor-positive (ER+) and tripl... | |
Cell-cell interaction analysis in HCC and T cells. (A) The number and strength of interaction pathways among eight cell types. (B) Bubble plot showing specific pathways of the eight cell-cell interactions. (C) Hierarchical plot showing the inferred intercellular communication network for SPP1 signaling, indicating the ... | [
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"caption": "Cell-cell interaction analysis in HCC and T cells. Heatmap depicting the SPP1 signaling pathways to evaluate each cell type’s involvement in cell interaction, showing the relative import... | |
Enrichment for tissue state B is independently associated with worse survival. a Pre-ranked Gene Set Enrichment Analysis (GSEA) comparing tissue state B bulk RNAseq samples with tissue states A & C samples for 3 sub-lineages: Ast3, moTAM, and T-cells. Marker genes for each cell type were used as the gene set for each a... | [
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"caption": "Enrichment for tissue state B is independently associated with worse survival. Cox proportional hazard ratio of survival in the combined TCGA and CGGA IDH-WT GBM dataset given enrich... | |
Visualization results of datasets at spot resolution. (a) Visualization results of manual annotation and methods applied to the BRCA dataset. (b) Visualization results of manual annotation and methods applied to the MBA dataset. High-resolution images are available for viewing at https://github.com/bioszhr/AFSC/tree/ma... | [
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"caption": "Visualization results of datasets at spot resolution. Visualization results of manual annotation and methods applied to the BRCA dataset. High-resolution images are available for viewing at https://github.com/bios... | |
SEMITONES identifies spatially restricted markers from spatial transcriptomics data. (A) The spatially resolved expression profile of top spatially enriched SEMITONES genes. (B) The significance level in the number of standard deviations away from the mean of the empirical null distribution for a marker gene of fibre t... | [
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"caption": "SEMITONES identifies spatially restricted markers from spatial transcriptomics data. The annotation of spots as belonging to the fibre tracts, the glomerular layer of the main o... | |
The results of the PAGA algorithm on the hematopoiesis data of Paul et al. [2015] highlight strong connectivities between clusters 1–6. We use SlowMoMan to explore important features along a custom manifold between clusters 1–7. (a) The UMAP embedding of the hematopoiesis data of Paul et al. [2015] with the PAGA connec... | [
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"caption": "The results of the PAGA algorithm on the hematopoiesis data of Paul et al. [2015] highlight strong connectivities between clusters 1–6. We use SlowMoMan to explore important features ... | |
Single-cell spatial transcriptomics profiling by Molecular Cartography reveals dynamic zonation changes in EC-Wnt2-9b-DKO mice (A) UMAP plots of single-cell transcriptomic analysis of Molecular Cartography data showing genetic clusters of hepatocytes from control and EC-Wnt2-9b-DKO livers based on expression of 16 zona... | [
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"caption": "Single-cell spatial transcriptomics profiling by Molecular Cartography reveals dynamic zonation changes in EC-Wnt2-9b-DKO mice. Molecular Cartography depicting altered spatial expression of Ccnd1... | |
OTUD5 is a GPX4-interacting protein for stabilization in response to I/R. a PRTCs were induced by H/R in the presence or absence of the proteasome inhibitor MG132, or the lysosome inhibitor chloroquine (CQ) for 3 h. Cells were collected, and the protein levels were analyzed by immunoblotting. b Immunoblot and quantific... | [
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"caption": "OTUD5 is a GPX4-interacting protein for stabilization in response to I/R. Immunoblotting and quantification of GPX4 and OTUD5 expression in siOTUD5-infected HK2 cells, which were pretreat... | |
Application of TACIT on Xenium data. (a) UMAP and (b) spatial plots color-coded by identified cell types. The UMAP plots demonstrate TACIT’s ability to cluster cells accurately, showing a clear separation of different cell types. Epithelial such as mucous acinar, myoepithelial, and seromucous acinar cells form more dis... | [
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"caption": "Application of TACIT on Xenium data. UMAP plots with low granularity cell types across the three methods. TACIT’s enhanced capabilities are further exemplified by its identification of rar... | |
Spatial domain detection analysis results of the Human cortex data from DLPFC: (A) The detected spatial domains for Sample 151670: Annotated domain used as the ground truth (left), by SpatialPCA (middle), and by our framework (Right). (B) The t-SNE plot for all the SVGs detected by SPACE for Sample 151670. SVGs are col... | [
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"caption": "Spatial domain detection analysis results of the Human cortex data from DLPFC: Comparison of PAS score between SpatialPCA and our framework based on all 12 samples."
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Representative images of spatial domains discovered using CellTransformer and comparison to CCF. (a.) Four sequential tissue sections (note that the inter-section distance is roughly 200 µm) from anterior to posterior. In the first three columns, each dot is a cellular neighborhood colored by the cluster label when k-m... | [
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"caption": "Representative images of spatial domains discovered using CellTransformer and comparison to CCF. Same as c. but quantifying a maximum similarity of any given CellCharter or CellTransform... | |
RegulatoryCd138 plasma cells expand during chronic T. brucei infection. A UMAP plot of oligodendrocyte/B cell subclusters. B Heatmap of the top 50 most abundant genes in the subcluster in (A). C As in A but depicting the identified different time points. Dotted line represents clusters exclusively detected in infected ... | [
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"caption": "RegulatoryCd138 plasma cells expand during chronic T. brucei infection. Flow cytometry of CD138+ plasma cells and CD19+ B cells in naïve (n = 3 mice), the first peak of infection (7dpi; n... | |
Higher immune‐suppressive potential coupled with active dysfunction of T cells in cervical cancer compared to precancer: (A) the UMAP plot of T lymphocytes which could be further reclustered into CD8+ T cells and CD4+ T cells; (B) the UMAP plot of the CD8+ T cells reclustered into seven subsets, including CD8+ MAIT, CD... | [
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"caption": "Higher immune‐suppressive potential coupled with active dysfunction of T cells in cervical cancer compared to precancer: the violin plots indicating the naiveness score, cytotoxicity score and exhaustion ... | |
Molecular characterization of PtPM and RPM primary prostate tumor transplants demonstrates emergence of neuroendocrine carcinoma marker expression. a. Representative histological analysis of PtPM (top) and RPM (bottom) tumors isolated at 4-weeks post-transplantation. Serial sections depict immunohistochemical staining ... | [
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"caption": "Molecular characterization of PtPM and RPM primary prostate tumor transplants demonstrates emergence of neuroendocrine carcinoma marker expression. Heatmap depicting th... | |
BarDensr outperforms the existing methods by discovering more rolonies. (A) Performance of BarDensr on simulated data. What percentage of rolonies are correctly detected? We use the Receiver Operating Characteristic curve (ROC curve) to look at this percentage (the complement of False Negative Rates, or 1-FNR) as a fun... | [
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"caption": "BarDensr outperforms the existing methods by discovering more rolonies. Performance of BarDensr on simulated data. What percentage of rolonies are correctly detected? We use the Receiver Operating Characteristic curv... | |
Annotation of DAPI or HE areas differentiate myeloid and lymphoid transcript clusters in the human TB granuloma. Example of annotated regions of a section of human lung TB lesion. Areas were selected based on their density of DAPI (in green low density and in red high density). Decoded M4SA1 and CD68 sequences in the s... | [
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"caption": "Annotation of DAPI or HE areas differentiate myeloid and lymphoid transcript clusters in the human TB granuloma. The mean relative density of transcripts in lymphoid and myeloid regions in sections of pu... | |
Spatial analysis of T cell distribution in glioblastomas. a Illustration of the workflow using spatially resolved transcriptomics (stRNA-seq). b Histological images (H&E), upper plot, and surface plots of the gene set enrichment of the mesenchymal-like signature (n = 3 patients) c, d Spatial correlation analysis with M... | [
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"caption": "Spatial analysis of T cell distribution in glioblastomas. Spatial distance between tumor subtypes and exhausted CD8+ cells from IMC data."
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The impact of PGAM1 on the Tumor Immune MicroEnvironment (TIME) was investigated. Immunological analyses of immune infiltrates and immunosuppressants were carried out using GSE159115 and GSE121636 databases, respectively, as shown in (A). Furthermore, a heatmap was presented to depict the correlation between PGAM1 expr... | [
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"caption": "The impact of PGAM1 on the Tumor Immune MicroEnvironment (TIME) was investigated. Immunological analyses of immune infiltrates and immunosuppressants were carried out using GSE159115 and GSE121636 databases, respect... | |
Inpp5d/ SHIP1 knockdown increased amyloid pathology and
plaque-associated microglia number. A,
Inpp5dfl/fl/Cx3xr1CreER+
mice were crossed with the amyloid-depositing
APP/PSEN1
mouse model of Alzheimer’s disease (AD) to obtain either heterozygous
PSAPP mice, that is,
PSAPP/Inpp5dfl/fl/Cx3xr1CreER+
(PSAPP) or wild-type l... | [
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"caption": "Inpp5d/ SHIP1 knockdown increased amyloid pathology and plaque-associated microglia number. Inpp5dfl/fl/Cx3xr1CreER+ mice were crossed with the amyloid-depositing APP/PSEN1 mouse model o... | |
Subsets analysis and MIA mapping of epithelial cell ( Identification of subgroups of epithelial cells in ESCC. b. The distribution of epithelial cells in three ESCC patients. c. Characteristic gene expression heatmap of each subgroup of epithelial cell. d. Cell number and sample proportion of each cell subsets. e. MIA ... | [
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"caption": "Subsets analysis and MIA mapping of epithelial cell (Identification of subgroups of epithelial cells in ESCC. MIA results of epithelial cells in cancer and stroma of spatial transcript... | |
Sex differences within the AD in DS cohort. a, We performed differential expression analyses between female and male samples for each spatial cluster within the AD in DS cohort for our ST dataset. Since we had more female than male samples in the ST dataset, we subsampled the ST spots in the female samples to match the... | [
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"caption": "Sex differences within AD in DS cohort. We performed differential expression analyses between female and male samples for each spatial cluster within the AD in DS cohort for... | |
ADEPT improves spatial domain identification, enhances the spatial patterns of layer-marker genes, and correctly infers the spatial trajectory on DLPFC section 151675 (A) Best clustering results from six tools. Each visualization result has seven different clusters, corresponding to six different cortical layers and wh... | [
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"caption": "ADEPT improves spatial domain identification, enhances the spatial patterns of layer-marker genes, and correctly infers the spatial trajectory on DLPFC section 151675. UMAP visualizations, an... | |
Effector CD8+T cell subset identification in the PCa microenvironment. A) Unsupervised clustering of T cells gave rise to 7 sub‐clusters. B–D) Comprehensive B) utilize feature plot, C) violin plot, and D) dot plot to illustrate the marker genes expression pattern in CD4T (CD4), CD8T (CD8ACD8B), γδT (CD4‐CD8) as well as... | [
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"caption": "Effector CD8+T cell subset identification in the PCa microenvironment. Comprehensive dot plot to illustrate the marker genes expression pattern in CD4T (CD4), CD8T (CD8ACD8B), γδT (CD... | |
Characterize the heterogeneity of fibroblast subpopulations. A) scRNA‐seq of PCa fibroblasts revealed five distinct cell types based on their transcriptional profiles. B–D) Comprehensive utilized B) violin plot, C) feature plot, and D) dot plot to illustrate their marker genes expression pattern among the 5 distinct fi... | [
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"caption": "Characterize the heterogeneity of fibroblast subpopulations. In situ analysis of FOXP3+ regulatory T cells and FAP+ fibroblasts in the malignant PCa patients. The line plot indic... | |
Comparative performance of SpaCAE to existing spatial and non-spatial methods on spatial domain identification. (A) DLPFC layers were annotated by Maynard et al. The ground truth of spots was mapped on their spatial position in slide 151675 (n = 3592 spots), which was separated into six cortical layers (L1–L6) and WM. ... | [
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"caption": "Comparative performance of SpaCAE to existing spatial and non-spatial methods on spatial domain identification. ARI boxplots of whether deep spatial contrast is used, whether spatial data augme... | |
Reanalysis of B cell subset. (A) UMAP of B cell subset. (B) Expression of selected genes in B cell subset. (C) Expression of immunoglobulin genes in B cell subset. | [
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"caption": "Reanalysis of B cell subset. Expressi... | |
STAMP deconvolutes CAFs from regular fibroblasts in SMI NSCLC data. a, NSCLC sample data acquired using CosMx Spatial Molecular Imager (SMI) with the original cell type annotation. b, Gene module rankings (number) and scores (color) of marker genes for each topic. c, Spatial plots of topics annotated using their gene m... | [
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"caption": "STAMP deconvolutes CAFs from regular fibroblasts in SMI NSCLC data. Gene module rankings (number) and scores (color) of marker genes for each topic."
},
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... | |
Systematic parameter optimization and integration of DeepST. (A) The ARI pirate graph of nine GNN types, each of which was evaluated on 12 DLPFC slides, respectively. Spatial domain distributions of slides 151673 and 151507 with various networks (SGCConv, ResGatedGraphConv and GCNConv) are displayed, respectively. (B) ... | [
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"caption": "Systematic parameter optimization and integration of DeepST. The ARI pirate graph of nine GNN types, each of which was evaluated on 12 DLPFC slides, respectively. Spatial domain distributions of slides 151673 a... | |
Spatial transcriptome analysis of E13.5 limb tip (ROI_A). (a) Volcano plots of DEGs up-regulated and down-regulated in the MO embryonic limb tip compared with those in the CT group. (b) Down-regulated migration-related GO biological process terms in the limb tip of the MO embryo compared with the CT group. (c). Down-re... | [
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"caption": "Spatial transcriptome analysis of E13.5 limb tip (ROI_A). Volcano plots of DEGs up-regulated and down-regulated in the MO embryonic limb tip compared with those in the CT group.... | |
Spatially driven signaling in melanoma LMD. A. Schematic showing the basic principles behind the algorithm used to identify KEGG pathway enrichment that have significant spatial patterns (left) and a heatmap highlighting the quantity and similarities/differences of KEGG pathways showing significant spatial pattern with... | [
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"caption": "Spatially driven signaling in melanoma LMD. Schematic showing the basic principles behind the algorithm used to identify KEGG pathway enrichment that have significant ... | |
Overlap in β-cells with high PFKFB3 and MAIP1 expression. (A, B, C) Representative immunofluorescence images of islets from mice as described in Fig 5, double immunostained for insulin and MAIP1 (red), insulin (green), and nuclei (blue). The sectioning was performed across the whole pancreas. For quantification of MAIP... | [
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"caption": "Overlap in β-cells with high PFKFB3 and MAIP1 expression. Represe... | |
Spatiotemporal analysis of key biological processes during barley germination. (A) Tissue specific functional category analysis. The categories identified from wordcloud outputs for the gene lists at each time point and tissue are shown, for those categories identified in at least three time points for a given tissue t... | [
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"caption": "Spatiotemporal analysis of key biological processes during barley germination. Most highly expressed genes across all samples. The table shows the genes expressed in 15 or more of the 25 samples makin... | |
Indicators of OXPHOS and glutathione biosynthesis in HltfCDX model. (A) Photomicrograph emphasizes gradient of positive immunostaining for MT-CYB in tumor cells of the HltfCDX including tumor cells in lymphatic intravascular niches (blue arrow heads) of the mouse TME. 10X magnification. (B) Violin plots from spatial tr... | [
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"caption": "Indicators of OXPHOS and glutathione biosynthesis in HltfCDX model. Violin plots from spatial transcriptomics depicts regional gene expression. Each violin plot is a composite of genes. The top ... | |
Processing whole_mouse_embryo data on MULTILAYER (A) When the size matrix defined by the user doesn’t comply with the grid size retrieved within the data, a size warning error is displayed. User can decide whether or not to accept the proposed grid size modification. This option does not impact the computing steps, but... | [
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"caption": "Processing whole_mouse_embryo data on MULTILAYER. As MULTILAYER processes the data, the Anaconda prompt interface displays a listing of the different steps taking place."
},
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"bbox": [... | |
VCAM-1 mediates inflammation by enhancing mtDNA synthesis. (A-D) mtDNA levels by qPCR after oxLDL treatment (A, normalized to nLDL, n = 4/group, two-tailed t-test), mtDNA synthesis gene expression after nLDL (n) or oxLDL(ox) treatment by qPCR (B), and representative 8-OHdG, EdU, and TOM20 images after oxLDL treatment (... | [
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"caption": "VCAM-1 mediates inflammation by enhancing mtDNA synthesis. Polg, Cmpk2 and Pgc1a were silenced selectively in macrophages of female Ldlr−/− mice on atherogenic diet by siRNA delivery in DOTAP l... | |
Functional study of ZmSUT genes in maize seed. a Spatial expression patterns of ZmSUT (14 DAP) and Betl9 (14 and 18 DAP) genes. b Semi-thin sections (panels 1 and 2) and transmission electron microscopy (TEM, panels 3 and 4) of the BETL region in the wild-type KN5585 (panels 1 and 3) and zmsutRNAi-1/7 (panels 2 and 4) ... | [
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"caption": "Functional study of ZmSUT genes in maize seed. Plant phenotypes of the wild-type KN5585, selfing zmsut1/7RNAi-1, selfing zmsut1/7RNAi-2, WT × RNAi-1 and WT × RNAi-2. Bar = 10 cm."
},
... | |
Prediction of cancer cells. (A) Heatmap of the predicted cancer cells. The upper markers are chromosomes 1 to 22 and X. The color markers on the left represent the predicted cell types, where green are normal cells and red are predicted cancer cells. Blue in the heat map indicates loss and red indicates amplification; ... | [
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"label": "B",
"caption": "Prediction of cancer cells. Cell types used for CopyKAT analysis."
},
{
"bbox": [
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"label"... | |
DeST-OT analysis of axolotl brain development. a, Stereo-seq data from axolotl brain sections at embryonic stage 44, embryonic stage 54, embryonic stage 57, Juvenile stage, and Adult stage, with cell type labels from [43] b, Cell type transition graph derived from DeST-OT alignments throughout axolotl brain development... | [
{
"bbox": [
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],
"label": "B",
"caption": "DeST-OT analysis of axolotl brain development. Cell type transition graph derived from DeST-OT alignments throughout axolotl brain development. The cell types are arranged in a half circle. A cell... | |
Robust signatures of granulosa and theca cells. (A) Focused PCA of the 5 theca-enriched ROIs and 11 granulosa-enriched ROIs from donor 1, showing their separation into two clusters. (B) Similar PC plot for 6 theca and 18 granulosa ROI samples from donor 2. (C) Expression specificity of the 94 granulosa cell maker genes... | [
{
"bbox": [
0,
312.011,
375.0131,
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],
"label": "B",
"caption": "Robust signatures of granulosa and theca cells. Similar PC plot for 6 theca and 18 granulosa ROI samples from donor 2."
},
{
"bbox": [
0,
0,
356.0291,
313.026
],
"l... | |
Spatial transcriptomics clustering and marker genes of four pancreatic tissues at different locations. (A) Normal pancreas tissue (NP, green circle) and pancreatic ductal adenocarcinoma tissues, including tumor (T, yellow circle), tumor stroma (TS, red circle), and adjacent tumor tissue (ATT, blue circle), were selecte... | [
{
"bbox": [
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"label": "A",
"caption": "Spatial transcriptomics clustering and marker genes of four pancreatic tissues at different locations. Normal pancreas tissue (NP, green circle) and pancreatic duct... | |
Identification of astrocyte transcriptomic gene modules. (A) Heatmap showing pairwise correlations of non-negative matrix factorization (NMF) submodules derived from 294 samples. The resembled submodules across samples are aggregated into 7 modules (M1−M7). (B) Heatmap showing expression of marker genes within each mod... | [
{
"bbox": [
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"label": "F",
"caption": "Identification of astrocyte transcriptomic gene modules. The interaction networks for the M2 ECM and M4 stress modular genes (blue, M2 modular genes; red, M4 modular genes). Node size i... | |
Comparative spatial transcriptomics of nematodes. (a, b) The schematics represent anatomical overviews of Pristionchus pacificus (a) and Caenorhabditis elegans (b) hermaphrodites together with expression domains of selected marker genes which were used to define regions across the A–P axis. For example, P5 was defined ... | [
{
"bbox": [
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375.9641,
338.0356
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"label": "E",
"caption": "Comparative spatial transcriptomics of nematodes. Hierarchical clustering of P. pacificus sections based on Pearson correlation indicates that sections within a region are generally highly simil... | |
Single nucleus RNA sequencing of mPFC from 2BC-CIE paradigm treated animals: (a) Schematic diagram showing the experimental design, animals were subjected to chronic intermittent ethanol or air (control) followed by 2 h 2 bottle choice (ethanol/water), after 5 CIE sessions, brains were collected, flash frozen, mounted ... | [
{
"bbox": [
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"label": "C",
"caption": "Single nucleus RNA sequencing of mPFC from 2BC-CIE paradigm treated animals: tSNE plot showing single nuclei clustering from alcohol vapor and air control samples, color coded by ... | |
Protein markers of murine CD45− cell subsets, related to Figure 3 (A) CITE-seq data from the murine CD45− cells in Figure 3A were exported as an FCS file and an in silico gating strategy identified in FlowJo. (B) Gated cell overlay of populations identified using strategy in (A). (C) Expression of CD90, CD204, CD73, an... | [
{
"bbox": [
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"label": "D",
"caption": "Protein markers of murine CD45− cell subsets, related to Figure 3. Expression of indicated protein markers in 60-plex MICS analysis in endothelial cells. PV, portal vein; CV, central v... |
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