Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synovium.
Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synovium.
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DOI：
10.1038/s42003-022-03050-3
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发表时间：
2022-02-11
影响因子：
5.9
通讯作者：
Ståhl PL
中科院分区：
文献类型：
--
作者：
Vickovic S;Schapiro D;Carlberg K;Lötstedt B;Larsson L;Hildebrandt F;Korotkova M;Hensvold AH;Catrina AI;Sorger PK;Malmström V;Regev A;Ståhl PL
发炎的风湿性关节是高度异质性和复杂的组织，具有在局部区域内以多方面方式相互作用的多种细胞类型的动态募集和扩增。风湿性关节炎滑膜主要通过免疫染色或组织匀浆后的分子谱研究。在这里，我们使用空间转录组学，其中组织驻留RNA在转录组范围内以条形码原位空间标记，以研究慢性滑膜炎症部位的局部组织相互作用。我们报告了全面的空间RNA-Seq数据，结合滑膜中浸润白细胞组织结构处和周围的细胞类型特异性定位模式。结合形态学特征和高通量空间分辨转录组学可能能够提供更高的统计能力和更多的见解监测疾病的严重程度和治疗特异性反应，血清阳性和血清阴性类风湿关节炎。Sanja Vickovic等人使用空间转录组学来探测类风湿性关节炎（RA）患者中的局部滑膜组织相互作用。他们的结果为了解RA相关炎症背景下滑膜中细胞群的空间组织提供了宝贵的资源。
The inflamed rheumatic joint is a highly heterogeneous and complex tissue with dynamic recruitment and expansion of multiple cell types that interact in multifaceted ways within a localized area. Rheumatoid arthritis synovium has primarily been studied either by immunostaining or by molecular profiling after tissue homogenization. Here, we use Spatial Transcriptomics, where tissue-resident RNA is spatially labeled in situ with barcodes in a transcriptome-wide fashion, to study local tissue interactions at the site of chronic synovial inflammation. We report comprehensive spatial RNA-Seq data coupled to cell type-specific localization patterns at and around organized structures of infiltrating leukocyte cells in the synovium. Combining morphological features and high-throughput spatially resolved transcriptomics may be able to provide higher statistical power and more insights into monitoring disease severity and treatment-specific responses in seropositive and seronegative rheumatoid arthritis. Sanja Vickovic et al. use spatial transcriptomics to probe the local synovial tissue interactions in rheumatoid arthritis (RA) patients. Their results provide a valuable resource to understand the spatial organisation of cell populations in the synovium in the context of RA-associated inflammation.
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影响因子：
4.6
作者：
Bankhead P;Loughrey MB;Fernández JA;Dombrowski Y;McArt DG;Dunne PD;McQuaid S;Gray RT;Murray LJ;Coleman HG;James JA;Salto-Tellez M;Hamilton PW
通讯作者：
Hamilton PW
影响因子：
64.5
作者：
Levine JH;Simonds EF;Bendall SC;Davis KL;Amir el-AD;Tadmor MD;Litvin O;Fienberg HG;Jager A;Zunder ER;Finck R;Gedman AL;Radtke I;Downing JR;Pe'er D;Nolan GP
通讯作者：
Nolan GP
DOI：
10.1093/bioinformatics/btu638
发表时间：
2015-01-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Anders S;Pyl PT;Huber W
通讯作者：
Huber W
影响因子：
3
作者：
Bergstrom EN;Barnes M;Martincorena I;Alexandrov LB
通讯作者：
Alexandrov LB
影响因子：
64.5
作者：
Goltsev Y;Samusik N;Kennedy-Darling J;Bhate S;Hale M;Vazquez G;Black S;Nolan GP
通讯作者：
Nolan GP