De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution
Current methods to reanalyze bulk RNA-seq at spatially resolved single-cell resolution have limitations. Here, the authors develop Bulk2Space, a spatial deconvolution algorithm using single-cell and spatial transcriptomics as references, providing new insights into spatial heterogeneity within bulk...
| Main Authors: | , , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2022-10-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-022-34271-z |
| _version_ | 1811257182509858816 |
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| author | Jie Liao Jingyang Qian Yin Fang Zhuo Chen Xiang Zhuang Ningyu Zhang Xin Shao Yining Hu Penghui Yang Junyun Cheng Yang Hu Lingqi Yu Haihong Yang Jinlu Zhang Xiaoyan Lu Li Shao Dan Wu Yue Gao Huajun Chen Xiaohui Fan |
| author_facet | Jie Liao Jingyang Qian Yin Fang Zhuo Chen Xiang Zhuang Ningyu Zhang Xin Shao Yining Hu Penghui Yang Junyun Cheng Yang Hu Lingqi Yu Haihong Yang Jinlu Zhang Xiaoyan Lu Li Shao Dan Wu Yue Gao Huajun Chen Xiaohui Fan |
| author_sort | Jie Liao |
| collection | DOAJ |
| description | Current methods to reanalyze bulk RNA-seq at spatially resolved single-cell resolution have limitations. Here, the authors develop Bulk2Space, a spatial deconvolution algorithm using single-cell and spatial transcriptomics as references, providing new insights into spatial heterogeneity within bulk tissue. |
| first_indexed | 2024-04-12T17:53:25Z |
| format | Article |
| id | doaj.art-1755839fc334439e964694bc980e7a46 |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2024-04-12T17:53:25Z |
| publishDate | 2022-10-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-1755839fc334439e964694bc980e7a462022-12-22T03:22:26ZengNature PortfolioNature Communications2041-17232022-10-0113111910.1038/s41467-022-34271-zDe novo analysis of bulk RNA-seq data at spatially resolved single-cell resolutionJie Liao0Jingyang Qian1Yin Fang2Zhuo Chen3Xiang Zhuang4Ningyu Zhang5Xin Shao6Yining Hu7Penghui Yang8Junyun Cheng9Yang Hu10Lingqi Yu11Haihong Yang12Jinlu Zhang13Xiaoyan Lu14Li Shao15Dan Wu16Yue Gao17Huajun Chen18Xiaohui Fan19College of Pharmaceutical Sciences, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCollege of Computer Science and Technology, Zhejiang UniversityCollege of Computer Science and Technology, Zhejiang UniversityCollege of Computer Science and Technology, Zhejiang UniversityCollege of Computer Science and Technology, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCollege of Computer Science and Technology, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityInstitute of Translational Medicine, The Affiliated Hospital of Hangzhou Normal University, Hangzhou Normal UniversityCollege of Biomedical Engineering and Instrument Science, Zhejiang UniversityDepartment of Pharmaceutical Sciences, Beijing Institute of Radiation MedicineCollege of Computer Science and Technology, Zhejiang UniversityCollege of Pharmaceutical Sciences, Zhejiang UniversityCurrent methods to reanalyze bulk RNA-seq at spatially resolved single-cell resolution have limitations. Here, the authors develop Bulk2Space, a spatial deconvolution algorithm using single-cell and spatial transcriptomics as references, providing new insights into spatial heterogeneity within bulk tissue.https://doi.org/10.1038/s41467-022-34271-z |
| spellingShingle | Jie Liao Jingyang Qian Yin Fang Zhuo Chen Xiang Zhuang Ningyu Zhang Xin Shao Yining Hu Penghui Yang Junyun Cheng Yang Hu Lingqi Yu Haihong Yang Jinlu Zhang Xiaoyan Lu Li Shao Dan Wu Yue Gao Huajun Chen Xiaohui Fan De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution Nature Communications |
| title | De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution |
| title_full | De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution |
| title_fullStr | De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution |
| title_full_unstemmed | De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution |
| title_short | De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution |
| title_sort | de novo analysis of bulk rna seq data at spatially resolved single cell resolution |
| url | https://doi.org/10.1038/s41467-022-34271-z |
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