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10X Genomics visium platform
Visium Platform, supplied by 10X Genomics, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/spatial+transcriptomics+sequencing+(st-seq)/cellranger/pm33795819-93-17-20
Average 86 stars, based on 1 article reviews
visium platform - by Bioz Stars, 2026-10
86/100 stars

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Related Articles

Sequencing:

Article Title:
Article Snippet: Sequencing: Chromium Single Cell 3’ Library & Gel Bead Kit v2 , 10X Genomics , Cat#PN-120237, RRID: N/A. .. Sequencing: Chromium Single Cell 3’ Library & Gel Bead Kit v3 , 10X Genomics , CatPN-1000075, RRID: N/A. ..

Article Title:
Article Snippet: Sequencing: NextSeq 500/550 High Output Kit v2.5 , Illumina , Cat#20024907, RRID: N/A. .. Sequencing: Chromium Single Cell 3’ Library & Gel Bead Kit v2 , 10X Genomics , CatPN-120237, RRID: N/A. .. Sequencing: Chromium Single Cell 3’ Library & Gel Bead Kit v3 , 10X Genomics , Cat#PN-1000075, RRID: N/A.

Article Title:
Article Snippet: Isolated nuclei were diluted in nuclease-free water to achieve a concentration of 700–1200 nuclei/ml and single nuclei were captured for cDNA library generation using a microfluidics platform (10x Genomics). .. Samples were prepared for sequencing using Chromium Single Cell 3’ Reagents Kits v3 (10x Genomics). ..

Single Cell:

Article Title:
Article Snippet: Sequencing: Chromium Single Cell 3’ Library & Gel Bead Kit v2 , 10X Genomics , Cat#PN-120237, RRID: N/A. .. Sequencing: Chromium Single Cell 3’ Library & Gel Bead Kit v3 , 10X Genomics , CatPN-1000075, RRID: N/A. ..

Article Title:
Article Snippet: Sequencing: NextSeq 500/550 High Output Kit v2.5 , Illumina , Cat#20024907, RRID: N/A. .. Sequencing: Chromium Single Cell 3’ Library & Gel Bead Kit v2 , 10X Genomics , CatPN-120237, RRID: N/A. .. Sequencing: Chromium Single Cell 3’ Library & Gel Bead Kit v3 , 10X Genomics , Cat#PN-1000075, RRID: N/A.

Article Title:
Article Snippet: .. All CD45 + cell libraries were prepared using the 10x Genomics Chromium Single Cell 3’ v3 Gene Expression Kit and sequenced on Illumina NovaSeq. ..

Article Title: Single-cell RNA sequencing reveals depot-specific characteristics of adipose progenitor cells in ducks
Article Snippet: Cells with viability greater than 90% were washed, resuspended, and adjusted to a final concentration of 700–1200 cells/μL for subsequent single-cell library preparation using the 10x Genomics platform. .. Single-cell libraries were constructed using the Chromium Single Cell 3′ Reagent Kits v3 (10x Genomics) following the manufacturer’s instructions. ..

Article Title:
Article Snippet: Isolated nuclei were diluted in nuclease-free water to achieve a concentration of 700–1200 nuclei/ml and single nuclei were captured for cDNA library generation using a microfluidics platform (10x Genomics). .. Samples were prepared for sequencing using Chromium Single Cell 3’ Reagents Kits v3 (10x Genomics). ..

Gene Expression:

Article Title:
Article Snippet: .. All CD45 + cell libraries were prepared using the 10x Genomics Chromium Single Cell 3’ v3 Gene Expression Kit and sequenced on Illumina NovaSeq. ..

Construct:

Article Title: Single-cell RNA sequencing reveals depot-specific characteristics of adipose progenitor cells in ducks
Article Snippet: Cells with viability greater than 90% were washed, resuspended, and adjusted to a final concentration of 700–1200 cells/μL for subsequent single-cell library preparation using the 10x Genomics platform. .. Single-cell libraries were constructed using the Chromium Single Cell 3′ Reagent Kits v3 (10x Genomics) following the manufacturer’s instructions. ..

other:

Article Title:
Article Snippet: TCRs for the cells were assembled using Cell Ranger v3.1.0 vdj module based on the Ensembl reference genome GRCh38 v3.1.0 available from 10X Genomics.



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Transcription programs of ccRCC cells in response to cuproptosis. A UMAP showing the 10 subtypes of 26,981 Epithelial cells; B heatmap showing inferred CNV of scRNA-seq dataset; C dot plot of the relative cellular proportions of Epithelial subtypes in each group; D GSEA analysis revealed the activated CRGs enriched in Normal Epithelial cells; E violin plot showing the relative CRGs score in each cancer subtype; F survival plot of HILPDA + ccRCC1 signature high and low group in the KIRC samples; G violin plots of HILPDA expression levels and hypoxia scores in each cancer subtypes; H spatial <t>transcriptome</t> displayed the distribution of CRGs, HILPDA + ccRCC1 signatures, hypoxia scores and HILPDA expression; I the regulon specificity scores of TFs in HILPDA + ccRCC1 subtype. The top 5 TFs ordered by scores were listed; J violin plot showing the expression levels of the top 5 TFs in HILPDA + ccRCC1 subtype across stage I–IV.
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Transcription programs of ccRCC cells in response to cuproptosis. A UMAP showing the 10 subtypes of 26,981 Epithelial cells; B heatmap showing inferred CNV of scRNA-seq dataset; C dot plot of the relative cellular proportions of Epithelial subtypes in each group; D GSEA analysis revealed the activated CRGs enriched in Normal Epithelial cells; E violin plot showing the relative CRGs score in each cancer subtype; F survival plot of HILPDA + ccRCC1 signature high and low group in the KIRC samples; G violin plots of HILPDA expression levels and hypoxia scores in each cancer subtypes; H spatial <t>transcriptome</t> displayed the distribution of CRGs, HILPDA + ccRCC1 signatures, hypoxia scores and HILPDA expression; I the regulon specificity scores of TFs in HILPDA + ccRCC1 subtype. The top 5 TFs ordered by scores were listed; J violin plot showing the expression levels of the top 5 TFs in HILPDA + ccRCC1 subtype across stage I–IV.
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Image Search Results


Transcription programs of ccRCC cells in response to cuproptosis. A UMAP showing the 10 subtypes of 26,981 Epithelial cells; B heatmap showing inferred CNV of scRNA-seq dataset; C dot plot of the relative cellular proportions of Epithelial subtypes in each group; D GSEA analysis revealed the activated CRGs enriched in Normal Epithelial cells; E violin plot showing the relative CRGs score in each cancer subtype; F survival plot of HILPDA + ccRCC1 signature high and low group in the KIRC samples; G violin plots of HILPDA expression levels and hypoxia scores in each cancer subtypes; H spatial transcriptome displayed the distribution of CRGs, HILPDA + ccRCC1 signatures, hypoxia scores and HILPDA expression; I the regulon specificity scores of TFs in HILPDA + ccRCC1 subtype. The top 5 TFs ordered by scores were listed; J violin plot showing the expression levels of the top 5 TFs in HILPDA + ccRCC1 subtype across stage I–IV.

Journal: Discover Oncology

Article Title: Characterization of cuproptosis signature in clear cell renal cell carcinoma by single cell and spatial transcriptome analysis

doi: 10.1007/s12672-024-01162-2

Figure Lengend Snippet: Transcription programs of ccRCC cells in response to cuproptosis. A UMAP showing the 10 subtypes of 26,981 Epithelial cells; B heatmap showing inferred CNV of scRNA-seq dataset; C dot plot of the relative cellular proportions of Epithelial subtypes in each group; D GSEA analysis revealed the activated CRGs enriched in Normal Epithelial cells; E violin plot showing the relative CRGs score in each cancer subtype; F survival plot of HILPDA + ccRCC1 signature high and low group in the KIRC samples; G violin plots of HILPDA expression levels and hypoxia scores in each cancer subtypes; H spatial transcriptome displayed the distribution of CRGs, HILPDA + ccRCC1 signatures, hypoxia scores and HILPDA expression; I the regulon specificity scores of TFs in HILPDA + ccRCC1 subtype. The top 5 TFs ordered by scores were listed; J violin plot showing the expression levels of the top 5 TFs in HILPDA + ccRCC1 subtype across stage I–IV.

Article Snippet: The spatial transcriptome sequencing (ST-seq) dataset was obtained from Mendeley Data platform ( https://data.mendeley.com/datasets/g67bkbnhhg/1 ) and input to python environment.

Techniques: Expressing

Dissection of immunosuppressive cells of cuproptosis-related tumor microenvironment. A UMAP showing the 16 subtypes of 99,210 Immune cells; B violin plot of the relative expression levels of the canocial markers in each subtype; C heatmap showing the enrichment of immune checkpoint and suppressive genes; D spatial transcriptome displayed the distribution of Treg, CD8_Exhausted and TAM signature scores; E heatmap showing the four gene expression patterns deduced by TDEseq analysis; F violin plots showing the relative expression levels of CRG scores in the immunosuppressive cells across different stages; G Chord diagram showing the number of interactions among the four subtypes; H Bubble plot showing the ligand-receptor pairs in the main subtype; I Heatmap showing the relative expression levels of key genes of the four subtypes among the different stages. The paired ligand-receptor shown in H were connected by lines.

Journal: Discover Oncology

Article Title: Characterization of cuproptosis signature in clear cell renal cell carcinoma by single cell and spatial transcriptome analysis

doi: 10.1007/s12672-024-01162-2

Figure Lengend Snippet: Dissection of immunosuppressive cells of cuproptosis-related tumor microenvironment. A UMAP showing the 16 subtypes of 99,210 Immune cells; B violin plot of the relative expression levels of the canocial markers in each subtype; C heatmap showing the enrichment of immune checkpoint and suppressive genes; D spatial transcriptome displayed the distribution of Treg, CD8_Exhausted and TAM signature scores; E heatmap showing the four gene expression patterns deduced by TDEseq analysis; F violin plots showing the relative expression levels of CRG scores in the immunosuppressive cells across different stages; G Chord diagram showing the number of interactions among the four subtypes; H Bubble plot showing the ligand-receptor pairs in the main subtype; I Heatmap showing the relative expression levels of key genes of the four subtypes among the different stages. The paired ligand-receptor shown in H were connected by lines.

Article Snippet: The spatial transcriptome sequencing (ST-seq) dataset was obtained from Mendeley Data platform ( https://data.mendeley.com/datasets/g67bkbnhhg/1 ) and input to python environment.

Techniques: Dissection, Expressing, Gene Expression