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spatial transcriptome rna sequencing (strna-seq) data for breast cancer samples, specific to the 10x visium platform  (10X Genomics)

 
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    10X Genomics spatial transcriptome rna sequencing (strna-seq) data for breast cancer samples, specific to the 10x visium platform
    Spatial Transcriptome Rna Sequencing (Strna Seq) Data For Breast Cancer Samples, Specific To The 10x Visium Platform, supplied by 10X Genomics, 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/spatial+transcriptomics+rna+seq+data/cells+generated+with+the+10x+genomics+3%E2%80%99+v+2+protocol/pm38450906-83-9-20
    Average 90 stars, based on 1 article reviews
    spatial transcriptome rna sequencing (strna-seq) data for breast cancer samples, specific to the 10x visium platform - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    RNA Sequencing:

    Article Title: A computational framework for mapping isoform landscape and regulatory mechanisms from spatial transcriptomics data
    Article Snippet: .. We downloaded RNA-seq bam files of the 10X Visium data of a fresh frozen adult mouse coronal brain section sample from https://www.10xgenomics.com/datasets/adult-mouse-brain-coronal-section-fresh-frozen-1-standard , and the Slide-seqV2 data of adult mouse hippocampus from https://singlecell.broadinstitute.org/single_cell/study/SCP815/sensitive-spatial-genome-wide-expression-profiling-at-cellular-resolution#study-summary . ..

    other:

    Article Title: CPARI: a novel approach combining cell partitioning with absolute and relative imputation to address dropout in single-cell RNA-seq data.
    Article Snippet: Summary of the simulated scRNA-seq datasets Dataset name Cell type Subtype number Gene number Cell number Sequencing platform PBMC [29] Peripheral blood mononuclear cells 8 16449 4271 10X Genomics Worm neuron cells [30] Worm neuronal cells 10 13488 4186 Sci-RNA-seq Mouse bladder cells [31] Mouse bladder cells 16 20670 2746 Microwell-seq LPS [32] Various cells 4 2047 306 Array Figure 2.

    Expressing:

    Article Title: Single-cell long-read targeted sequencing reveals transcriptional variation in ovarian cancer
    Article Snippet: .. 8 ● Differential transcript usage, differential transcript expression and differential gene expression analysis ○ For the cell line gene expression analysis, in addition to good library-level correlation of gene quantitation between targeted short- and long-read methods (Supplementary Fig. 4), we observe good concordance in DEGs among matched individual cell lines across both methods: ○ The 10x Genomics gene expression kit is significantly biased towards the 3’ end of transcripts (see response to comment 4, which shows short-read metagene coverage). ..

    Gene Expression:

    Article Title: Single-cell long-read targeted sequencing reveals transcriptional variation in ovarian cancer
    Article Snippet: .. 8 ● Differential transcript usage, differential transcript expression and differential gene expression analysis ○ For the cell line gene expression analysis, in addition to good library-level correlation of gene quantitation between targeted short- and long-read methods (Supplementary Fig. 4), we observe good concordance in DEGs among matched individual cell lines across both methods: ○ The 10x Genomics gene expression kit is significantly biased towards the 3’ end of transcripts (see response to comment 4, which shows short-read metagene coverage). ..

    Article Title: Benchmarking computational methods for single-cell chromatin data analysis
    Article Snippet: .. For the unprocessed data, fragment files of the cell line dataset were downloaded from GEO accession GSE162690 [ ], fragment file and the gene expression matrix file of the 10X PBMC multiomics dataset were downloaded from https://www.10xgenomics.com/resources/datasets/pbmc-from-a-healthy-donor-granulocytes-removed-through-cell-sorting-10-k-1-standard-1-0-0 , and fragment files of the human adult atlas datasets were downloaded from GEO accession GSE184462 [ ]. ..

    Quantitation Assay:

    Article Title: Single-cell long-read targeted sequencing reveals transcriptional variation in ovarian cancer
    Article Snippet: .. 8 ● Differential transcript usage, differential transcript expression and differential gene expression analysis ○ For the cell line gene expression analysis, in addition to good library-level correlation of gene quantitation between targeted short- and long-read methods (Supplementary Fig. 4), we observe good concordance in DEGs among matched individual cell lines across both methods: ○ The 10x Genomics gene expression kit is significantly biased towards the 3’ end of transcripts (see response to comment 4, which shows short-read metagene coverage). ..

    Formalin-fixed Paraffin-Embedded:

    Article Title: Spatial transcriptomic analysis drives PET imaging of tight junction protein expression in pancreatic cancer theranostics
    Article Snippet: .. Formalin-fixed, paraffin-embedded (FFPE) human pancreatic cancer tissue sections were placed on spatial transcriptomic slides for spatial transcriptomic sequencing based on the 10x FFPE workflow (10x Genomics, Pleasanton, CA). .. Individually indexed libraries were sequenced on the Novaseq 6000 (Illumina Inc., San Diego, CA).

    Sequencing:

    Article Title: Spatial transcriptomic analysis drives PET imaging of tight junction protein expression in pancreatic cancer theranostics
    Article Snippet: .. Formalin-fixed, paraffin-embedded (FFPE) human pancreatic cancer tissue sections were placed on spatial transcriptomic slides for spatial transcriptomic sequencing based on the 10x FFPE workflow (10x Genomics, Pleasanton, CA). .. Individually indexed libraries were sequenced on the Novaseq 6000 (Illumina Inc., San Diego, CA).



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    10X Genomics spatial transcriptome rna sequencing (strna-seq) data for breast cancer samples, specific to the 10x visium platform
    Spatial Transcriptome Rna Sequencing (Strna Seq) Data For Breast Cancer Samples, Specific To The 10x Visium Platform, supplied by 10X Genomics, 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/spatial+transcriptomics+rna+seq+data/cells+generated+with+the+10x+genomics+3%E2%80%99+v+2+protocol/pm38450906-83-9-20
    Average 90 stars, based on 1 article reviews
    spatial transcriptome rna sequencing (strna-seq) data for breast cancer samples, specific to the 10x visium platform - by Bioz Stars, 2026-11
    90/100 stars
      Buy from Supplier

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