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stereo seq transcriptomics set user manual  (Complete Genomics Inc)


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    Complete Genomics Inc stereo seq transcriptomics set user manual
    Stereo Seq Transcriptomics Set User Manual, supplied by Complete Genomics Inc, used in various techniques. Bioz Stars score: 98/100, based on 34 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/stomics+spatial+transcriptomics+platform/Stereo-seq+Transcriptomics+Set/pmc10460394-283-7-12
    Average 98 stars, based on 34 article reviews
    stereo seq transcriptomics set user manual - by Bioz Stars, 2026-10
    98/100 stars

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    Related Articles

    Spatial Transcriptomics:

    Article Title: Single-cell Stereo-seq reveals regulatory mechanisms driving regeneration of injured proximal tubules during AKI.
    Article Snippet: .. Stereo-seq spatial transcriptomics data (BGI) were normalized using SCTransform in Seurat Spots with <1,000 total UMIs were filtered. ..

    Article Title: Somatic structural variants drive upper tract urothelial carcinoma muscle invasiveness via activation of TPX2 transcription.
    Article Snippet: .. 6 www.thelancet.com Vol 125 ▪, 2026 Spatial transcriptomics data generation and analysis Formalin-fixed paraffin-embedded (FFPE) urothelial carcinoma tissue sections were profiled using the Stereo-seq spatial transcriptomics platform (MGI, China) according to the manufacturer’s protocols. ..

    Article Title: A Foundational Generative Model for Cross-platform Unified Enhancement of Spatial Transcriptomics
    Article Snippet: .. These include sequencing-based: Visium (probe-based and polyA-based) , Visium CytAssist , and VisiumHD (all Visium platforms are products of 10X Genomics), Spatial Transcriptomics (Spatial Transcriptomics AB), Stereo-seq (BGI), BMK S1000 (BMKGENE), and Open-ST , and image-based platforms: Xenium (10X Genomics) and CosMx (Nanostring). ..

    Article Title: Somatic structural variants drive upper tract urothelial carcinoma muscle invasiveness via activation of TPX2 transcription
    Article Snippet: .. Formalin-fixed paraffin-embedded (FFPE) urothelial carcinoma tissue sections were profiled using the Stereo-seq spatial transcriptomics platform (MGI, China) according to the manufacturer's protocols. ..

    Formalin-fixed Paraffin-Embedded:

    Article Title: Somatic structural variants drive upper tract urothelial carcinoma muscle invasiveness via activation of TPX2 transcription.
    Article Snippet: .. 6 www.thelancet.com Vol 125 ▪, 2026 Spatial transcriptomics data generation and analysis Formalin-fixed paraffin-embedded (FFPE) urothelial carcinoma tissue sections were profiled using the Stereo-seq spatial transcriptomics platform (MGI, China) according to the manufacturer’s protocols. ..

    Article Title: Somatic structural variants drive upper tract urothelial carcinoma muscle invasiveness via activation of TPX2 transcription
    Article Snippet: .. Formalin-fixed paraffin-embedded (FFPE) urothelial carcinoma tissue sections were profiled using the Stereo-seq spatial transcriptomics platform (MGI, China) according to the manufacturer's protocols. ..

    Article Title: Mutational Signatures and Clonal Hematopoiesis in Intestinal Metaplasia across Countries with Varying Stomach Cancer Incidence
    Article Snippet: .. We used the STOmics Stereo-seq Transcriptomics Set for FFPE, which uses random primers to capture and sequence RNAs in situ . ..

    Article Title: Mutational Signatures and Clonal Hematopoiesis in Intestinal Metaplasia across Countries with Varying Stomach Cancer Incidence
    Article Snippet: across Countries with Varying Stomach Cancer Incidence Kie Kyon Huang1, Takeshi Hagihara1, Benedict Shi Xiang Lian1, Zhi Xuan Ong1, Shen Kiat Lim1, Roxanne Hui Heng Chong2, Supriya Srivastava2, Jason Xing Kang3, May Yin Lee4, Angie Lay-Keng Tan1, Minghui Lee1, Shamaine Wei Ting Ho4, Siti Aishah Binte Abdul Ghani1, Clara Shi Ya Ng1, Ruanyi Liang1, Lin Liu2, Su Ting Tay1, Xuewen Ong1, Feng Zhu2, Hui Chen5, Zhen Li5, Tiing Leong Ang6, Takuji Gotoda7,8, Robert J. Huang9, Christopher J.L.. Khor1,10, Hyun-Soo Kim11, Louis Ho Shing Lau12,13, Yi-Chia Lee14, Ayaka Takasu7,8, Ming Teh15, Mann Yie Thian16, Wai Leong Tam4,17,18,19, Xin Lu20, Sunny H. Wong3, Jimmy B.Y.. So21, Hyunsoo Chung22, Jonathan Lee2,23,24,25, Khay Guan Yeoh2,25, and Patrick Tan1,4,26,27,28; for the Singapore Gastric Cancer Consortium D ow nloaded from http://aacrjournals.org/cancerdiscovery/article-pdf/doi/10.1158/2159-8290.C D -25-0778/3726001/cd-25-0778.pdf by guest on 17 January 2026 AACRJournals.orgOF2 | CANCER DISCOVERY XXX 2026 intRoduction Gastric cancer is the fifth most common malignancy worldwide and the fourth leading cause of cancer death, accounting for 769,000 deaths globally in 2020 (1).

    Sequencing:

    Article Title: A Foundational Generative Model for Cross-platform Unified Enhancement of Spatial Transcriptomics
    Article Snippet: .. These include sequencing-based: Visium (probe-based and polyA-based) , Visium CytAssist , and VisiumHD (all Visium platforms are products of 10X Genomics), Spatial Transcriptomics (Spatial Transcriptomics AB), Stereo-seq (BGI), BMK S1000 (BMKGENE), and Open-ST , and image-based platforms: Xenium (10X Genomics) and CosMx (Nanostring). ..

    Article Title: Mutational Signatures and Clonal Hematopoiesis in Intestinal Metaplasia across Countries with Varying Stomach Cancer Incidence
    Article Snippet: .. We used the STOmics Stereo-seq Transcriptomics Set for FFPE, which uses random primers to capture and sequence RNAs in situ . ..

    Article Title: Mutational Signatures and Clonal Hematopoiesis in Intestinal Metaplasia across Countries with Varying Stomach Cancer Incidence
    Article Snippet: across Countries with Varying Stomach Cancer Incidence Kie Kyon Huang1, Takeshi Hagihara1, Benedict Shi Xiang Lian1, Zhi Xuan Ong1, Shen Kiat Lim1, Roxanne Hui Heng Chong2, Supriya Srivastava2, Jason Xing Kang3, May Yin Lee4, Angie Lay-Keng Tan1, Minghui Lee1, Shamaine Wei Ting Ho4, Siti Aishah Binte Abdul Ghani1, Clara Shi Ya Ng1, Ruanyi Liang1, Lin Liu2, Su Ting Tay1, Xuewen Ong1, Feng Zhu2, Hui Chen5, Zhen Li5, Tiing Leong Ang6, Takuji Gotoda7,8, Robert J. Huang9, Christopher J.L.. Khor1,10, Hyun-Soo Kim11, Louis Ho Shing Lau12,13, Yi-Chia Lee14, Ayaka Takasu7,8, Ming Teh15, Mann Yie Thian16, Wai Leong Tam4,17,18,19, Xin Lu20, Sunny H. Wong3, Jimmy B.Y.. So21, Hyunsoo Chung22, Jonathan Lee2,23,24,25, Khay Guan Yeoh2,25, and Patrick Tan1,4,26,27,28; for the Singapore Gastric Cancer Consortium D ow nloaded from http://aacrjournals.org/cancerdiscovery/article-pdf/doi/10.1158/2159-8290.C D -25-0778/3726001/cd-25-0778.pdf by guest on 17 January 2026 AACRJournals.orgOF2 | CANCER DISCOVERY XXX 2026 intRoduction Gastric cancer is the fifth most common malignancy worldwide and the fourth leading cause of cancer death, accounting for 769,000 deaths globally in 2020 (1).

    Transcriptomics:

    Article Title: Mutational Signatures and Clonal Hematopoiesis in Intestinal Metaplasia across Countries with Varying Stomach Cancer Incidence
    Article Snippet: .. We used the STOmics Stereo-seq Transcriptomics Set for FFPE, which uses random primers to capture and sequence RNAs in situ . ..

    Article Title: Mutational Signatures and Clonal Hematopoiesis in Intestinal Metaplasia across Countries with Varying Stomach Cancer Incidence
    Article Snippet: across Countries with Varying Stomach Cancer Incidence Kie Kyon Huang1, Takeshi Hagihara1, Benedict Shi Xiang Lian1, Zhi Xuan Ong1, Shen Kiat Lim1, Roxanne Hui Heng Chong2, Supriya Srivastava2, Jason Xing Kang3, May Yin Lee4, Angie Lay-Keng Tan1, Minghui Lee1, Shamaine Wei Ting Ho4, Siti Aishah Binte Abdul Ghani1, Clara Shi Ya Ng1, Ruanyi Liang1, Lin Liu2, Su Ting Tay1, Xuewen Ong1, Feng Zhu2, Hui Chen5, Zhen Li5, Tiing Leong Ang6, Takuji Gotoda7,8, Robert J. Huang9, Christopher J.L.. Khor1,10, Hyun-Soo Kim11, Louis Ho Shing Lau12,13, Yi-Chia Lee14, Ayaka Takasu7,8, Ming Teh15, Mann Yie Thian16, Wai Leong Tam4,17,18,19, Xin Lu20, Sunny H. Wong3, Jimmy B.Y.. So21, Hyunsoo Chung22, Jonathan Lee2,23,24,25, Khay Guan Yeoh2,25, and Patrick Tan1,4,26,27,28; for the Singapore Gastric Cancer Consortium D ow nloaded from http://aacrjournals.org/cancerdiscovery/article-pdf/doi/10.1158/2159-8290.C D -25-0778/3726001/cd-25-0778.pdf by guest on 17 January 2026 AACRJournals.orgOF2 | CANCER DISCOVERY XXX 2026 intRoduction Gastric cancer is the fifth most common malignancy worldwide and the fourth leading cause of cancer death, accounting for 769,000 deaths globally in 2020 (1).

    In Situ:

    Article Title: Mutational Signatures and Clonal Hematopoiesis in Intestinal Metaplasia across Countries with Varying Stomach Cancer Incidence
    Article Snippet: .. We used the STOmics Stereo-seq Transcriptomics Set for FFPE, which uses random primers to capture and sequence RNAs in situ . ..

    Article Title: Mutational Signatures and Clonal Hematopoiesis in Intestinal Metaplasia across Countries with Varying Stomach Cancer Incidence
    Article Snippet: across Countries with Varying Stomach Cancer Incidence Kie Kyon Huang1, Takeshi Hagihara1, Benedict Shi Xiang Lian1, Zhi Xuan Ong1, Shen Kiat Lim1, Roxanne Hui Heng Chong2, Supriya Srivastava2, Jason Xing Kang3, May Yin Lee4, Angie Lay-Keng Tan1, Minghui Lee1, Shamaine Wei Ting Ho4, Siti Aishah Binte Abdul Ghani1, Clara Shi Ya Ng1, Ruanyi Liang1, Lin Liu2, Su Ting Tay1, Xuewen Ong1, Feng Zhu2, Hui Chen5, Zhen Li5, Tiing Leong Ang6, Takuji Gotoda7,8, Robert J. Huang9, Christopher J.L.. Khor1,10, Hyun-Soo Kim11, Louis Ho Shing Lau12,13, Yi-Chia Lee14, Ayaka Takasu7,8, Ming Teh15, Mann Yie Thian16, Wai Leong Tam4,17,18,19, Xin Lu20, Sunny H. Wong3, Jimmy B.Y.. So21, Hyunsoo Chung22, Jonathan Lee2,23,24,25, Khay Guan Yeoh2,25, and Patrick Tan1,4,26,27,28; for the Singapore Gastric Cancer Consortium D ow nloaded from http://aacrjournals.org/cancerdiscovery/article-pdf/doi/10.1158/2159-8290.C D -25-0778/3726001/cd-25-0778.pdf by guest on 17 January 2026 AACRJournals.orgOF2 | CANCER DISCOVERY XXX 2026 intRoduction Gastric cancer is the fifth most common malignancy worldwide and the fourth leading cause of cancer death, accounting for 769,000 deaths globally in 2020 (1).

    other:

    Article Title: Single-cell spatiotemporal dissection of the human maternal-fetal interface.
    Article Snippet: Dissected tissues were sequentially washed to remove residual blood cells in DMEM/H-21 medium, supplemented with 12.5% FBS (Hyclone), 1% L-glutamine (Atlanta Biologicals), 1% penicillin/streptomycin and 0.1% gentamicin and cold 1× PBS (Gibco, Thermofisher).



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    Spatial Transcriptomics Inc stomics spatial transcriptomics platform
    Schematic principle and workflow of spatial omics in cardiovascular research. (A) Spatial <t>transcriptomics:</t> Mapped gene expression patterns in cardiovascular tissues, identifying specific gene signatures in different heart regions. Sequencing-based methods are illustrated using the principles of Visium as an example, while imaging-based methods are represented by the principles of Xenium. Slight variations in principles may exist across different technologies. (B) Spatial proteomics: Analyzed protein distributions and interactions, revealing protein networks and spatial organization within cardiac tissues. Antibody-dependent spatial MS methods are illustrated using the principles of GeoMx DSP as an example, while cyclic antibody imaging-based methods are represented by the principles of PCF and CODEX. Slight variations in principles may exist across different technologies. (C) Spatial metabolomics: Provided high-resolution metabolite profiling, revealing metabolic alterations and spatial distributions in cardiovascular tissues. (D) Spatial epigenomics: Profiled chromatin accessibility, histone modifications, and DNA methylation patterns, providing insights into epigenetic landscapes in cardiac cells. (E) Spatial genomics: Studied the spatial arrangement of genetic material within cell nuclei, revealing the 3D genome organization and its impact on cellular function. Created with BioRender.
    Stomics Spatial Transcriptomics Platform, supplied by Spatial Transcriptomics Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Schematic principle and workflow of spatial omics in cardiovascular research. (A) Spatial transcriptomics: Mapped gene expression patterns in cardiovascular tissues, identifying specific gene signatures in different heart regions. Sequencing-based methods are illustrated using the principles of Visium as an example, while imaging-based methods are represented by the principles of Xenium. Slight variations in principles may exist across different technologies. (B) Spatial proteomics: Analyzed protein distributions and interactions, revealing protein networks and spatial organization within cardiac tissues. Antibody-dependent spatial MS methods are illustrated using the principles of GeoMx DSP as an example, while cyclic antibody imaging-based methods are represented by the principles of PCF and CODEX. Slight variations in principles may exist across different technologies. (C) Spatial metabolomics: Provided high-resolution metabolite profiling, revealing metabolic alterations and spatial distributions in cardiovascular tissues. (D) Spatial epigenomics: Profiled chromatin accessibility, histone modifications, and DNA methylation patterns, providing insights into epigenetic landscapes in cardiac cells. (E) Spatial genomics: Studied the spatial arrangement of genetic material within cell nuclei, revealing the 3D genome organization and its impact on cellular function. Created with BioRender.

    Journal: Research

    Article Title: Application of Spatial Omics in the Cardiovascular System

    doi: 10.34133/research.0628

    Figure Lengend Snippet: Schematic principle and workflow of spatial omics in cardiovascular research. (A) Spatial transcriptomics: Mapped gene expression patterns in cardiovascular tissues, identifying specific gene signatures in different heart regions. Sequencing-based methods are illustrated using the principles of Visium as an example, while imaging-based methods are represented by the principles of Xenium. Slight variations in principles may exist across different technologies. (B) Spatial proteomics: Analyzed protein distributions and interactions, revealing protein networks and spatial organization within cardiac tissues. Antibody-dependent spatial MS methods are illustrated using the principles of GeoMx DSP as an example, while cyclic antibody imaging-based methods are represented by the principles of PCF and CODEX. Slight variations in principles may exist across different technologies. (C) Spatial metabolomics: Provided high-resolution metabolite profiling, revealing metabolic alterations and spatial distributions in cardiovascular tissues. (D) Spatial epigenomics: Profiled chromatin accessibility, histone modifications, and DNA methylation patterns, providing insights into epigenetic landscapes in cardiac cells. (E) Spatial genomics: Studied the spatial arrangement of genetic material within cell nuclei, revealing the 3D genome organization and its impact on cellular function. Created with BioRender.

    Article Snippet: In addition, the sequencing-based STOmics Spatial Transcriptomics platform utilizes advanced sequencing technologies to precisely capture and analyze transcriptomic information in its spatial context [ ].

    Techniques: Gene Expression, Sequencing, Imaging, Spatial Proteomics, DNA Methylation Assay, Cell Function Assay

    Summary of the commonly used method of spatial omics technologies

    Journal: Research

    Article Title: Application of Spatial Omics in the Cardiovascular System

    doi: 10.34133/research.0628

    Figure Lengend Snippet: Summary of the commonly used method of spatial omics technologies

    Article Snippet: In addition, the sequencing-based STOmics Spatial Transcriptomics platform utilizes advanced sequencing technologies to precisely capture and analyze transcriptomic information in its spatial context [ ].

    Techniques: Sequencing, Imaging, Formalin-fixed Paraffin-Embedded, Expressing, In Situ, High Throughput Screening Assay, Spatial Proteomics, Multiplexing, Fluorescence, Microscopy, Modification

    Comparative summary of sample preparation for spatial omics technologies

    Journal: Research

    Article Title: Application of Spatial Omics in the Cardiovascular System

    doi: 10.34133/research.0628

    Figure Lengend Snippet: Comparative summary of sample preparation for spatial omics technologies

    Article Snippet: In addition, the sequencing-based STOmics Spatial Transcriptomics platform utilizes advanced sequencing technologies to precisely capture and analyze transcriptomic information in its spatial context [ ].

    Techniques: Sample Prep, Preserving, Modification, Spatial Proteomics, Imaging, Mass Cytometry

    Schematic view of cardiovascular diseases using spatial transcriptomics. (A) Atherosclerosis: Showed high macrophage infiltration and molecular signatures related to plaque stability within atherosclerotic plaques. (B) Myocardial infarction: Displayed distinct gene expression patterns in infarcted and peri-infarct zones, highlighting molecular responses to ischemic injury. (C) Cardiomyopathy: Revealed fibrosis-related genes and altered cellular composition in HCM tissues. (D) Heart failure: Uncovered region-specific gene expression changes that contribute to the progression of HF. (E) Aortic dissection: Highlighted distinct molecular profiles in dissection sites, providing insights into pathophysiology and potential therapeutic targets. (F) Cardiac myxoma: Identified tumor-specific gene signatures and interactions within the tumor microenvironment. CM, cardiomyocyte; FB, fibroblast; Mac, macrophage; SMC, smooth muscle cell; ETC, EC-like tumor cells; MTC, MSC-like tumor cells. Created with http://BioRender.com .

    Journal: Research

    Article Title: Application of Spatial Omics in the Cardiovascular System

    doi: 10.34133/research.0628

    Figure Lengend Snippet: Schematic view of cardiovascular diseases using spatial transcriptomics. (A) Atherosclerosis: Showed high macrophage infiltration and molecular signatures related to plaque stability within atherosclerotic plaques. (B) Myocardial infarction: Displayed distinct gene expression patterns in infarcted and peri-infarct zones, highlighting molecular responses to ischemic injury. (C) Cardiomyopathy: Revealed fibrosis-related genes and altered cellular composition in HCM tissues. (D) Heart failure: Uncovered region-specific gene expression changes that contribute to the progression of HF. (E) Aortic dissection: Highlighted distinct molecular profiles in dissection sites, providing insights into pathophysiology and potential therapeutic targets. (F) Cardiac myxoma: Identified tumor-specific gene signatures and interactions within the tumor microenvironment. CM, cardiomyocyte; FB, fibroblast; Mac, macrophage; SMC, smooth muscle cell; ETC, EC-like tumor cells; MTC, MSC-like tumor cells. Created with http://BioRender.com .

    Article Snippet: In addition, the sequencing-based STOmics Spatial Transcriptomics platform utilizes advanced sequencing technologies to precisely capture and analyze transcriptomic information in its spatial context [ ].

    Techniques: Gene Expression, Dissection, Biomarker Discovery

    Summary of spatial  transcriptomics  in the research of cardiovascular diseases

    Journal: Research

    Article Title: Application of Spatial Omics in the Cardiovascular System

    doi: 10.34133/research.0628

    Figure Lengend Snippet: Summary of spatial transcriptomics in the research of cardiovascular diseases

    Article Snippet: In addition, the sequencing-based STOmics Spatial Transcriptomics platform utilizes advanced sequencing technologies to precisely capture and analyze transcriptomic information in its spatial context [ ].

    Techniques: Expressing, Gene Expression, Marker, Infection, Activation Assay, Transformation Assay