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ramda seq single cell kit  (Toyobo)


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    Toyobo ramda seq single cell kit
    Ramda Seq Single Cell Kit, supplied by Toyobo, used in various techniques. Bioz Stars score: 94/100, based on 20 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/single-cell+spatial+transcriptomics+data/GenNext+RamDA-seq+Single+Cell+Kit/pm40059822-419-9-15
    Average 94 stars, based on 20 article reviews
    ramda seq single cell kit - by Bioz Stars, 2026-10
    94/100 stars

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    Related Articles

    Synthesized:

    Article Title: scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase.
    Article Snippet: .. cDNA was synthesized from RNA by using the GenNext®RamDA-seqTM Single Cell Kit (TOYOBO, #RMD-101) according to the manufacturer’s instructions, with the following modifications. ..

    Article Title: scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase
    Article Snippet: .. cDNA was synthesized from RNA by using the GenNext®RamDA-seqTM Single Cell Kit (TOYOBO, #RMD-101) according to the manufacturer’s instructions, with the following modifications. ..

    Single Cell:

    Article Title: scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase.
    Article Snippet: .. cDNA was synthesized from RNA by using the GenNext®RamDA-seqTM Single Cell Kit (TOYOBO, #RMD-101) according to the manufacturer’s instructions, with the following modifications. ..

    Article Title: Isolation of Streptococcus mutans in the gastrointestinal tract of corpses
    Article Snippet: S. mutans strains was cultured in BHI broth at 37 °C for 18 h. Bacterial cells were lysed using Qiazol (Qiagen, Germantown, MD, USA), and total RNA of S. mutans strains were isolated using miRNeasy Micro Kit (Qiagen) according to the manufacturer’s instructions. .. Library preparation was performed using GenNext RamDA-seq Single Cell Kit (Toyobo, Tokyo, Japan). .. Whole transcriptome sequencing was performed in 100 base single-end mode using the Illumina NovaSeq 6000 platform (Illumina Inc., San Diego, CA, USA).

    Article Title: scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase
    Article Snippet: .. cDNA was synthesized from RNA by using the GenNext®RamDA-seqTM Single Cell Kit (TOYOBO, #RMD-101) according to the manufacturer’s instructions, with the following modifications. ..

    Lysis:

    Article Title: scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase.
    Article Snippet: .. Sample and library preparation for scRamDA-seq After single cells were sorted into 0.2-ml tubes, we added 3 μl of complete RamDA-seq lysis buffer (TOYOBO, #RMD-101). .. Aphidicolin treatment in IMR-90 cells IMR-90 cells (JCRB Cell Bank, JCRB9054) were incubated for 72 h in MEMα with L-Glutamine and Phenol Red (Wako, #135-15175) containing 10% FBS, 1× penicillin/streptomycin, and 0.4 μM of aphidicolin43 before collection.

    Article Title: scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase.
    Article Snippet: .. Subsequently, 1 or 3 μl of complete RamDA-seq lysis buffer (TOYOBO, #RMD-101) containing 2mg/ml or 0.67mg/ml DynabeadsTM MyOneTM Carboxylic Acid (Invitrogen, #65011), respectively, was added to each tube. ..

    Article Title: scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase
    Article Snippet: .. Subsequently, 1 or 3 μl of complete RamDA-seq lysis buffer (TOYOBO, #RMD-101) containing 2 mg/ml or 0.67 mg/ml DynabeadsTM MyOneTM Carboxylic Acid (Invitrogen, #65011), respectively, was added to each tube. ..



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    Image Search Results


    (a) Simplified cross-section of the human epidermis, highlighting squamous cells, melanocytes and basal cells. Coloured regions represent cSCC (green), which originates from squamous cells, melanoma (orange), which originates from melanocytes, and BCC (blue), which originates from basal cells. Two orange melanocytes are shown in the dermal region as occurs in invasive melanoma; other cells in the lower dermis layer are not depicted. (b) Overview of sample design and technologies used to generate data for this project. ROI - region of interest; FOV - field of view; S - cSCC; B - BCC; M - melanoma; HC - healthy (cancer patient); HNC - healthy (non-cancer patient donor). Technologies included are single cell RNA sequencing for fresh samples, single nuclei sequencing for formalin-fixed samples, Visium, Xenium, CosMX, GeoMX DSP for whole transcriptome, GeoMX DSP for proteins, Polaris, RNAscope, the proximal ligation assay, spatial glycomics and CODEX.

    Journal: bioRxiv

    Article Title: Integrating 12 Spatial and Single Cell Technologies to Characterise Tumour Neighbourhoods and Cellular Interactions in three Skin Cancer Types

    doi: 10.1101/2025.07.25.666708

    Figure Lengend Snippet: (a) Simplified cross-section of the human epidermis, highlighting squamous cells, melanocytes and basal cells. Coloured regions represent cSCC (green), which originates from squamous cells, melanoma (orange), which originates from melanocytes, and BCC (blue), which originates from basal cells. Two orange melanocytes are shown in the dermal region as occurs in invasive melanoma; other cells in the lower dermis layer are not depicted. (b) Overview of sample design and technologies used to generate data for this project. ROI - region of interest; FOV - field of view; S - cSCC; B - BCC; M - melanoma; HC - healthy (cancer patient); HNC - healthy (non-cancer patient donor). Technologies included are single cell RNA sequencing for fresh samples, single nuclei sequencing for formalin-fixed samples, Visium, Xenium, CosMX, GeoMX DSP for whole transcriptome, GeoMX DSP for proteins, Polaris, RNAscope, the proximal ligation assay, spatial glycomics and CODEX.

    Article Snippet: Cells expressing the two genes are visualized on single-cell level resolution spatial data from STOmics and Curio-Seeker (Takara Bio, USA) melanoma samples and appear to be in spatial proximity ( ).

    Techniques: RNA Sequencing, Sequencing, RNAscope, Ligation

    (a) Gene specificity score (GSS) and association of spatial spots with skin cancer heritability. GSS score for each gene in a spot/cell represents the enrichment of the gene as a top rank most abundant gene in the spot/cell and its neighbour spots/cells in an anatomical region, a spatial domain, or a cell type. The p-value shows the spatial heritability enrichment significance of a spot with a trait based on SNPs mapped to the genes with high GSS scores (one-sided Z-test for stratified coefficient different to 0). The p-value is more significant if the SNPs that are mapped to the high GSS genes explain a higher proportion of heritability for the trait. (b) Cell types with the highest enrichment of heritability explained by SNPs tagged to GSS genes of cells in a cell type. The white asterisks indicate the most enriched cell-type for heritability of cutaneous melanoma, cSCC and BCC traits. (c) gsMAP significance spatial heritability enrichment is shown at single-cell resolution across the tissue (upper tissue plots) or per annotated skin regions (lower violin plots) from the cosMx data of the sample mel48974. (d) LR pairs with significant association with SNP heritability explained by the corresponding cell types. The rectangles show cases where both L and R genes had PCC >0.3 between GSS of the gene and the gsMAP P-values (the significance level for the LD stratified coefficients for the spot bigger than 0). The results suggest which LR pairs are related with the heritability of a cell type pairs. (e) GSS of two LR pairs showing specificity of the L and R genes to tissue regions at the immune-rich dermal layers and the epidermis of the skin. (f) Manhattan plot showing top significant GWAS SNPs co-localizing with genes in melanocytes (red) and T cells (blue) that had the highest Pearson correlation between GSS and the gsMAP trait association P-value or associated with SNPs with genome-wide significance. The Y-axis shows the -log(P-value) from GWAS analysis.

    Journal: bioRxiv

    Article Title: Integrating 12 Spatial and Single Cell Technologies to Characterise Tumour Neighbourhoods and Cellular Interactions in three Skin Cancer Types

    doi: 10.1101/2025.07.25.666708

    Figure Lengend Snippet: (a) Gene specificity score (GSS) and association of spatial spots with skin cancer heritability. GSS score for each gene in a spot/cell represents the enrichment of the gene as a top rank most abundant gene in the spot/cell and its neighbour spots/cells in an anatomical region, a spatial domain, or a cell type. The p-value shows the spatial heritability enrichment significance of a spot with a trait based on SNPs mapped to the genes with high GSS scores (one-sided Z-test for stratified coefficient different to 0). The p-value is more significant if the SNPs that are mapped to the high GSS genes explain a higher proportion of heritability for the trait. (b) Cell types with the highest enrichment of heritability explained by SNPs tagged to GSS genes of cells in a cell type. The white asterisks indicate the most enriched cell-type for heritability of cutaneous melanoma, cSCC and BCC traits. (c) gsMAP significance spatial heritability enrichment is shown at single-cell resolution across the tissue (upper tissue plots) or per annotated skin regions (lower violin plots) from the cosMx data of the sample mel48974. (d) LR pairs with significant association with SNP heritability explained by the corresponding cell types. The rectangles show cases where both L and R genes had PCC >0.3 between GSS of the gene and the gsMAP P-values (the significance level for the LD stratified coefficients for the spot bigger than 0). The results suggest which LR pairs are related with the heritability of a cell type pairs. (e) GSS of two LR pairs showing specificity of the L and R genes to tissue regions at the immune-rich dermal layers and the epidermis of the skin. (f) Manhattan plot showing top significant GWAS SNPs co-localizing with genes in melanocytes (red) and T cells (blue) that had the highest Pearson correlation between GSS and the gsMAP trait association P-value or associated with SNPs with genome-wide significance. The Y-axis shows the -log(P-value) from GWAS analysis.

    Article Snippet: Cells expressing the two genes are visualized on single-cell level resolution spatial data from STOmics and Curio-Seeker (Takara Bio, USA) melanoma samples and appear to be in spatial proximity ( ).

    Techniques: Genome Wide

    Journal: Cell

    Article Title: Spatiotemporal analysis of human intestinal development at single-cell resolution

    doi: 10.1016/j.cell.2020.12.016

    Figure Lengend Snippet:

    Article Snippet: STAR-FINDer Single Cell and Spatial Transcriptomics Data Portal , This study , https://simmonslab.shinyapps.io/FetalAtlasDataPortal.

    Techniques: Conjugation Assay, Recombinant, Saline, Modification, Plasmid Preparation, Gene Expression, RNAscope, Generated, Software