Acquisition, processing, and single-cell analysis of normal human breast tissues from a biobank
Summary: The Komen Tissue Bank is the only biorepository in the world for normal breast tissues from women. Below we report the acquisition and processing of breast tissue from volunteer donors and describe an experimental and analysis pipeline to generate a single-cell atlas. This atlas is based on...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2022-03-01
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| Series: | STAR Protocols |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S266616672100753X |
| _version_ | 1829118403802038272 |
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| author | Poornima Bhat-Nakshatri Natascia Marino Hongyu Gao Yunlong Liu Anna Maria Storniolo Harikrishna Nakshatri |
| author_facet | Poornima Bhat-Nakshatri Natascia Marino Hongyu Gao Yunlong Liu Anna Maria Storniolo Harikrishna Nakshatri |
| author_sort | Poornima Bhat-Nakshatri |
| collection | DOAJ |
| description | Summary: The Komen Tissue Bank is the only biorepository in the world for normal breast tissues from women. Below we report the acquisition and processing of breast tissue from volunteer donors and describe an experimental and analysis pipeline to generate a single-cell atlas. This atlas is based on single-cell RNA-seq and is useful to derive breast epithelial cell subcluster-specific gene expression signatures, which can be applied to breast cancer gene expression data to identify putative cell-of-origin.For complete details on the use and execution of this protocol, please refer to Bhat-Nakshatri et al. (2021). |
| first_indexed | 2024-12-13T10:36:28Z |
| format | Article |
| id | doaj.art-cbc19e52813c4bfabab587e5da1e5ff3 |
| institution | Directory Open Access Journal |
| issn | 2666-1667 |
| language | English |
| last_indexed | 2024-12-13T10:36:28Z |
| publishDate | 2022-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj.art-cbc19e52813c4bfabab587e5da1e5ff32022-12-21T23:50:43ZengElsevierSTAR Protocols2666-16672022-03-0131101047Acquisition, processing, and single-cell analysis of normal human breast tissues from a biobankPoornima Bhat-Nakshatri0Natascia Marino1Hongyu Gao2Yunlong Liu3Anna Maria Storniolo4Harikrishna Nakshatri5Department of Surgery, Indiana University School of Medicine, Indianapolis, IN 46202, USA; Corresponding authorDepartment of Medicine, Indiana University School of Medicine, Indianapolis, IN 46202, USADepartment of Medical and Molecular Genetics, Indiana University School of Medicine, Indianapolis, IN 46202, USADepartment of Medical and Molecular Genetics, Indiana University School of Medicine, Indianapolis, IN 46202, USA; Indiana University Melvin and Bren Simon Comprehensive Cancer Center, Indiana University School of Medicine, Indianapolis, IN 46202, USADepartment of Medicine, Indiana University School of Medicine, Indianapolis, IN 46202, USA; Indiana University Melvin and Bren Simon Comprehensive Cancer Center, Indiana University School of Medicine, Indianapolis, IN 46202, USADepartment of Surgery, Indiana University School of Medicine, Indianapolis, IN 46202, USA; Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, IN 46202, USA; Indiana University Melvin and Bren Simon Comprehensive Cancer Center, Indiana University School of Medicine, Indianapolis, IN 46202, USA; Richard L. Roudebush VA Medical Center, Indianapolis, IN 46202, USA; Corresponding authorSummary: The Komen Tissue Bank is the only biorepository in the world for normal breast tissues from women. Below we report the acquisition and processing of breast tissue from volunteer donors and describe an experimental and analysis pipeline to generate a single-cell atlas. This atlas is based on single-cell RNA-seq and is useful to derive breast epithelial cell subcluster-specific gene expression signatures, which can be applied to breast cancer gene expression data to identify putative cell-of-origin.For complete details on the use and execution of this protocol, please refer to Bhat-Nakshatri et al. (2021).http://www.sciencedirect.com/science/article/pii/S266616672100753XSequence analysisCell BiologySingle CellCancerHealth SciencesGenomics |
| spellingShingle | Poornima Bhat-Nakshatri Natascia Marino Hongyu Gao Yunlong Liu Anna Maria Storniolo Harikrishna Nakshatri Acquisition, processing, and single-cell analysis of normal human breast tissues from a biobank STAR Protocols Sequence analysis Cell Biology Single Cell Cancer Health Sciences Genomics |
| title | Acquisition, processing, and single-cell analysis of normal human breast tissues from a biobank |
| title_full | Acquisition, processing, and single-cell analysis of normal human breast tissues from a biobank |
| title_fullStr | Acquisition, processing, and single-cell analysis of normal human breast tissues from a biobank |
| title_full_unstemmed | Acquisition, processing, and single-cell analysis of normal human breast tissues from a biobank |
| title_short | Acquisition, processing, and single-cell analysis of normal human breast tissues from a biobank |
| title_sort | acquisition processing and single cell analysis of normal human breast tissues from a biobank |
| topic | Sequence analysis Cell Biology Single Cell Cancer Health Sciences Genomics |
| url | http://www.sciencedirect.com/science/article/pii/S266616672100753X |
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