Integrating single-cell RNA-seq and imaging with SCOPE-seq2.
Integrating single-cell RNA-seq and imaging with SCOPE-seq2.
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将单细胞RNA-seq和Imaging与范围seq2集成。
DOI：
10.1038/s41598-020-76599-w
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发表时间：
2020-11-10
影响因子：
4.6
通讯作者：
Sims PA
中科院分区：
文献类型：
--
作者：
Liu Z;Yuan J;Lasorella A;Iavarone A;Bruce JN;Canoll P;Sims PA
活细胞成像可以直接观察和监测难以从转录组学推断的表型。然而，现有的连接显微镜和单细胞 RNA-seq (scRNA-seq) 的方法的可扩展性有限。在这里，我们描述了单细胞光学表型和表达 (SCOPE-seq2) 的升级版本，用于结合单细胞成像和表达谱分析，在通量、分子捕获效率、连接准确性以及与标准显微镜仪器的兼容性方面具有显着改进。我们引入了改进的光学可解码 mRNA 捕获珠，并实施了更具可扩展性和简化的光学解码过程。我们展示了 SCOPE-seq2 对人胶质母细胞瘤 (GBM) 手术样本中单个原代细胞进行荧光、形态学和表达谱分析的实用性，揭示了简单成像特征和细胞身份之间的关系，特别是在恶性转化的肿瘤细胞中。
Live cell imaging allows direct observation and monitoring of phenotypes that are difficult to infer from transcriptomics. However, existing methods for linking microscopy and single-cell RNA-seq (scRNA-seq) have limited scalability. Here, we describe an upgraded version of Single Cell Optical Phenotyping and Expression (SCOPE-seq2) for combining single-cell imaging and expression profiling, with substantial improvements in throughput, molecular capture efficiency, linking accuracy, and compatibility with standard microscopy instrumentation. We introduce improved optically decodable mRNA capture beads and implement a more scalable and simplified optical decoding process. We demonstrate the utility of SCOPE-seq2 for fluorescence, morphological, and expression profiling of individual primary cells from a human glioblastoma (GBM) surgical sample, revealing relationships between simple imaging features and cellular identity, particularly among malignantly transformed tumor cells.
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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
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Nolan GP
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12.3
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Bose S;Wan Z;Carr A;Rizvi AH;Vieira G;Pe'er D;Sims PA
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Sims PA
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Marioni JC
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50.3
作者：
Phillips, HS;Kharbanda, S;Aldape, K
通讯作者：
Aldape, K
使用纳米液液滴对单个细胞的高度平行基因组表达分析。
影响因子：
64.5
作者：
Macosko EZ;Basu A;Satija R;Nemesh J;Shekhar K;Goldman M;Tirosh I;Bialas AR;Kamitaki N;Martersteck EM;Trombetta JJ;Weitz DA;Sanes JR;Shalek AK;Regev A;McCarroll SA
通讯作者：
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