{
  "abstract": "Spatial omics has advanced our understanding of tissue-level biology, yet tools to systematically link gene functional perturbations to spatial phenotypes and signaling pathways remain limited. To address this, we developed spatial CRISPR screen sequencing (SPAC-seq), a high-throughput spatial CRISPR screen platform, and TARDIS (target prioritization toolkit for perturbation data in spatial omics), a statistical spatial perturbation analysis toolkit. Using SPAC-seq and TARDIS, we linked gene perturbations to spatial phenotypes and pathways, uncovering how Icam1 loss in tumor cells promotes metastasis via immune suppression and macrophage polarization. In CD8 + T cells, we revealed Cd44 's role in regulating spatial phenotypes by interacting with Spp1 on macrophages. We also demonstrated the model of the transcription factor-chemokine receptor axis coupling cell states with chemotaxis. SPAC-seq and TARDIS provide an effective framework to study spatially resolved functional genomics and pathways across diverse biological and disease contexts.",
  "abstract_shown": true,
  "affiliations": [
    "Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100084, China",
    "Center for Quantitative Biology, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100084, China",
    "Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100084, China; Center for Quantitative Biology, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100084, China",
    "BGI Research, Hangzhou 310030, China",
    "State Key Laboratory of Molecular Oncology, National Cancer Center, National Clinical Research Center for Cancer, Cancer Hospital, Chinese Academy of Medical Sciences, and Peking Union Medical College, Beijing 100021, China",
    "Tsinghua-Peking Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing 100084, China",
    "Department of Gastroenterological Surgery, Peking University People's Hospital, Beijing 100084, China",
    "Beijing Advanced Center of Cellular Homeostasis and Aging-Related Diseases, Institute of Advanced Clinical Medicine, Peking University, Beijing 100871, China",
    "State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen 518083, China; BGI Collaborative Center for Future Medicine, Shanxi Medical University, Taiyuan 030001, China. Electronic address: fengyu1@genomics.cn",
    "School of Basic Medical Sciences, Tsinghua University, Beijing 100084, China; Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China. Electronic address: dpan@tsinghua.edu.cn"
  ],
  "article_type": null,
  "arxiv": null,
  "author_total": 21,
  "authors": [
    {
      "affs": [
        0
      ],
      "name": "Haorui Zhang",
      "orcid": "0009-0000-1555-3562"
    },
    {
      "affs": [
        1
      ],
      "name": "Zongxu Zhang",
      "orcid": "0009-0006-2909-5842"
    },
    {
      "affs": [
        2
      ],
      "name": "Peiyu Wang"
    },
    {
      "affs": [
        2
      ],
      "name": "Tian Xu"
    },
    {
      "affs": [
        3
      ],
      "name": "Xiaoyu Chen"
    },
    {
      "affs": [
        4,
        5
      ],
      "name": "Yanping Zhao"
    },
    {
      "affs": [
        0
      ],
      "name": "Siyu Lin"
    },
    {
      "affs": [
        0
      ],
      "name": "Wenjie Cai"
    },
    {
      "affs": [
        2
      ],
      "name": "Pengfei Ren"
    },
    {
      "affs": [
        0
      ],
      "name": "Ce Luo",
      "orcid": "0000-0001-8024-6753"
    },
    {
      "affs": [
        0
      ],
      "name": "Peng Zhang",
      "orcid": "0000-0002-9177-6108"
    },
    {
      "affs": [
        2
      ],
      "name": "Yunfeng Wang"
    },
    {
      "affs": [
        6
      ],
      "name": "Sen Hou"
    },
    {
      "affs": [
        4,
        5
      ],
      "name": "Yahui Zhao"
    },
    {
      "affs": [
        0
      ],
      "name": "Hu Zeng",
      "orcid": "0000-0003-4773-205X"
    },
    {
      "affs": [
        4
      ],
      "name": "Zhihua Liu",
      "orcid": "0000-0003-4242-033X"
    },
    {
      "affs": [
        7
      ],
      "name": "Cunyu Wang"
    },
    {
      "affs": [
        6
      ],
      "name": "Zhidong Gao"
    },
    {
      "affs": [
        8
      ],
      "name": "Yu Feng",
      "orcid": "0000-0001-8358-8740"
    },
    {
      "affs": [
        9
      ],
      "name": "Deng Pan",
      "orcid": "0000-0002-6475-0463"
    },
    {
      "name": "Zexian Zeng",
      "orcid": "0000-0002-3905-3244"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/3284pptax2139.bib",
  "cited_by": 8,
  "doi": "10.1016/j.cell.2026.04.049",
  "fulltext_url": null,
  "id": "3284pptax2139",
  "issns": [
    "0092-8674",
    "1097-4172"
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  "landing_url": "https://doi.org/10.1016/j.cell.2026.04.049",
  "language": "en",
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "journal",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
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  "pdf_url": null,
  "pmcid": null,
  "pmid": "42190664",
  "published": "2026-05-26",
  "publisher": "Cell Press",
  "ris": "https://research.draconitic.com/paper/3284pptax2139.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T13:26:48Z",
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      "url": "https://doi.org/10.1016/j.cell.2026.04.049"
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  "subjects": [
    {
      "field": "biochemistry",
      "origin": "openalex:1312|Single-cell and spatial transcriptomics",
      "subfield": "molecular-biology"
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  "title": "Uncovering spatially resolved functional genomics with CRISPR screen sequencing",
  "title_text": "Uncovering spatially resolved functional genomics with CRISPR screen sequencing",
  "type": "peer-reviewed",
  "updated_at": "2026-11-04T13:21:07Z",
  "url": "https://research.draconitic.com/paper/3284pptax2139",
  "venue": "Cell",
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