Spatial reconstruction of immune niches by combining photoactivatable reporters and scRNA-seq | Zendy

Chiara Medaglia | Zendy; Amir Giladi | Zendy; Liat StolerBarak | Zendy; Marco De Giovanni | Zendy; TomerMeir Salame | Zendy; Adi Biram | Zendy; Eyal David | Zendy; Hanjie Li | Zendy; Matteo Iannacone | Zendy; Ziv Shulman | Zendy; Ido Amit | Zendy

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Spatial reconstruction of immune niches by combining photoactivatable reporters and scRNA-seq

Author(s) -

Chiara Medaglia,

Amir Giladi,

Liat StolerBarak,

Marco De Giovanni,

TomerMeir Salame,

Adi Biram,

Eyal David,

Hanjie Li,

Matteo Iannacone,

Ziv Shulman,

Ido Amit

Publication year - 2017

Publication title -

science

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 12.556

H-Index - 1186

eISSN - 1095-9203

pISSN - 0036-8075

DOI - 10.1126/science.aao4277

Subject(s) - niche , biology , immune system , cell sorting , computational biology , spatial analysis , cell , immunology , genetics , geography , ecology , remote sensing

Spatial information from NICHE-seq Immune functions depend on the interactions of heterogeneous cells in a range of microenvironments in the body. Although information regarding immune cell function has been collected using single-cell RNA-sequencing methods, these techniques have traditionally lacked spatial information. Medagliaet al. describe NICHE-seq, a technique that allows the sorting and analysis of cells from within visually selected territories in transgenic mice that express photoactivatable green fluorescent protein. The method successfully identified T and B cell-specific niches in mouse lymph nodes and spleens after virus infection. The approach will allow us to bridge the gap between cellular and spatial information in studies of organs.Science , this issue p.1622

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