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visium human breast cancer dataset  (10X Genomics)

 
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    10X Genomics visium human breast cancer dataset
    Visium Human Breast Cancer Dataset, 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/visium+human+breast+cancer+dataset/breast+cancer+human/bio_rxiv__64898__2026__05__01__722104-202-1-21
    Average 86 stars, based on 1 article reviews
    visium human breast cancer dataset - by Bioz Stars, 2026-10
    86/100 stars

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    other:

    Article Title: Flexible integration of spatial and expression information for precise spot embedding via ZINB-based graph-enhanced autoencoder.
    Article Snippet: The raw 10X Communications Biology | (2025) 8:556 12 Visium Human Breast cancer dataset can be downloaded from https:// www.10xgenomics.com/datasets/human-breast-cancer-block-a-section-11-standard-1-1-0, and its annotation was downloaded from https:// huggingface.co/datasets/han-shu/st_datasets/tree/main.

    Article Title: SECE: accurate identification of spatial domain by incorporating global spatial proximity and local expression proximity
    Article Snippet: Vi sium human breast cancer dataset is available at https://www.10xgenomics.com/resources/datasets/human-breast-cancer-block-a-section-1-1-standard-1-1-0 .

    Blocking Assay:

    Article Title: Robust mapping of spatiotemporal trajectories and cell–cell interactions in healthy and diseased tissues
    Article Snippet: .. The stSME method was then applied again to independently impute the top 2000 highly variable genes (HVGs) across two replicate sections of the Visium human breast cancer dataset (10x Genomics; Block A, sections 1 and 2). ..

    Article Title: MilliMap: interactive closed-loop analysis for spatial omics
    Article Snippet: .. The Visium Human Breast Cancer dataset (Block A Section 1; fresh frozen invasive ductal carcinoma; Space Ranger v1.1.0) is available from 10x Genomics at https://www.10xgenomics.com/datasets/human-breast-cancer-block-a-section-1-1-standard-1-1-0 , licensed under CC BY 4.0. .. The Visium HD Mouse Brain dataset (FFPE; C57BL/6; Space Ranger v3.0.0) is available from 10x Genomics at https://www.10xgenomics.com/datasets/visium-hd-cytassist-gene-expression-libraries-of-mouse-brain-he , licensed under CC BY 4.0.



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    a Spatial annotation of the dataset, including labeled regions (left), aggregated compartments (middle), and the matched H&E image (right). Each spot has a diameter of approximately 55 μm, as specified by <t>10x</t> Genomics. b Top row: spatial expression of the ligand TGFB1 and its cognate receptors TGFBR2 , TGFBR1 and ACVR1B . Bottom row: total received signals predicted by SCILD for L-R pairs TGFB1- > TGFBR2, TGFB1- > TGFBR1, and TGFB1- > ACVR1B. c Same as ( b ) for the receptor ERBB2 and its cognate ligands HBEGF , AREG , and TGFA .
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    a Spatial annotation of the dataset, including labeled regions (left), aggregated compartments (middle), and the matched H&E image (right). Each spot has a diameter of approximately 55 μm, as specified by <t>10x</t> Genomics. b Top row: spatial expression of the ligand TGFB1 and its cognate receptors TGFBR2 , TGFBR1 and ACVR1B . Bottom row: total received signals predicted by SCILD for L-R pairs TGFB1- > TGFBR2, TGFB1- > TGFBR1, and TGFB1- > ACVR1B. c Same as ( b ) for the receptor ERBB2 and its cognate ligands HBEGF , AREG , and TGFA .
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    a Spatial annotation of the dataset, including labeled regions (left), aggregated compartments (middle), and the matched H&E image (right). Each spot has a diameter of approximately 55 μm, as specified by <t>10x</t> Genomics. b Top row: spatial expression of the ligand TGFB1 and its cognate receptors TGFBR2 , TGFBR1 and ACVR1B . Bottom row: total received signals predicted by SCILD for L-R pairs TGFB1- > TGFBR2, TGFB1- > TGFBR1, and TGFB1- > ACVR1B. c Same as ( b ) for the receptor ERBB2 and its cognate ligands HBEGF , AREG , and TGFA .
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    a Spatial annotation of the dataset, including labeled regions (left), aggregated compartments (middle), and the matched H&E image (right). Each spot has a diameter of approximately 55 μm, as specified by 10x Genomics. b Top row: spatial expression of the ligand TGFB1 and its cognate receptors TGFBR2 , TGFBR1 and ACVR1B . Bottom row: total received signals predicted by SCILD for L-R pairs TGFB1- > TGFBR2, TGFB1- > TGFBR1, and TGFB1- > ACVR1B. c Same as ( b ) for the receptor ERBB2 and its cognate ligands HBEGF , AREG , and TGFA .

    Journal: Communications Biology

    Article Title: Advancing spatial cellular communication inference with ligand diffusion and transport model

    doi: 10.1038/s42003-025-09413-w

    Figure Lengend Snippet: a Spatial annotation of the dataset, including labeled regions (left), aggregated compartments (middle), and the matched H&E image (right). Each spot has a diameter of approximately 55 μm, as specified by 10x Genomics. b Top row: spatial expression of the ligand TGFB1 and its cognate receptors TGFBR2 , TGFBR1 and ACVR1B . Bottom row: total received signals predicted by SCILD for L-R pairs TGFB1- > TGFBR2, TGFB1- > TGFBR1, and TGFB1- > ACVR1B. c Same as ( b ) for the receptor ERBB2 and its cognate ligands HBEGF , AREG , and TGFA .

    Article Snippet: The 10x Visium Human Breast Cancer dataset was downloaded from https://www.10xgenomics.com/datasets/human-breast-cancer-block-a-section-1-1-standard-1-1-0 and denoised using Sprod ( https://github.com/yunguan-wang/SPROD ) .

    Techniques: Labeling, Expressing