Seq-Well：一种用于大规模平行单细胞RNA测序的样本高效、便携式皮升孔平台。
Seq-Well: A Sample-Efficient, Portable Picowell Platform for Massively Parallel Single-Cell RNA Sequencing.
作者信息
Aicher Toby P, Carroll Shaina, Raddi Gianmarco, Gierahn Todd, Wadsworth Marc H, Hughes Travis K, Love Chris, Shalek Alex K
机构信息
Ragon Institute of MGH, Harvard, and MIT, Cambridge, MA, USA.
Department of Chemistry, Institute for Medical Engineering and Sciences (IMES), MIT, Cambridge, MA, USA.
出版信息
Methods Mol Biol. 2019;1979:111-132. doi: 10.1007/978-1-4939-9240-9_8.
Abstract
Seq-Well is a low-cost picowell platform that can be used to simultaneously profile the transcriptomes of thousands of cells from diverse, low input clinical samples. In Seq-Well, uniquely barcoded mRNA capture beads and cells are co-confined in picowells that are sealed using a semipermeable membrane, enabling efficient cell lysis and mRNA capture. The beads are subsequently removed and processed in parallel for sequencing, with each transcript's cell of origin determined via the unique barcodes. Due to its simplicity and portability, Seq-Well can be performed almost anywhere.
摘要
Seq-Well是一种低成本的皮升孔平台，可用于同时分析来自各种低输入量临床样本的数千个细胞的转录组。在Seq-Well中，带有独特条形码的mRNA捕获珠和细胞共同被限制在使用半透膜密封的皮升孔中，从而实现高效的细胞裂解和mRNA捕获。随后去除珠子并进行平行处理以进行测序，通过独特的条形码确定每个转录本的来源细胞。由于其简单性和便携性，Seq-Well几乎可以在任何地方进行。
相似文献
1
Seq-Well: A Sample-Efficient, Portable Picowell Platform for Massively Parallel Single-Cell RNA Sequencing.Seq-Well：一种用于大规模平行单细胞RNA测序的样本高效、便携式皮升孔平台。
Methods Mol Biol. 2019;1979:111-132. doi: 10.1007/978-1-4939-9240-9_8.
2
Seq-Well: portable, low-cost RNA sequencing of single cells at high throughput.Seq-Well：高通量、便携式、低成本的单细胞 RNA 测序。
Nat Methods. 2017 Apr;14(4):395-398. doi: 10.1038/nmeth.4179. Epub 2017 Feb 13.
3
Single-Cell RNA Sequencing with Drop-Seq.使用Drop-Seq进行单细胞RNA测序。
Methods Mol Biol. 2019;1979:73-85. doi: 10.1007/978-1-4939-9240-9_6.
4
Profiling Transcriptional Heterogeneity with Seq-Well S: A Low-Cost, Portable, High-Fidelity Platform for Massively Parallel Single-Cell RNA-Seq.利用 Seq-Well S 进行转录组异质性分析：一种用于大规模平行单细胞 RNA-Seq 的低成本、便携式、高保真度平台。
Methods Mol Biol. 2023;2584:57-104. doi: 10.1007/978-1-0716-2756-3_3.
5
BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis.BART-Seq：经济高效的大规模并行靶向测序技术，适用于基因组学、转录组学和单细胞分析。
Genome Biol. 2019 Aug 6;20(1):155. doi: 10.1186/s13059-019-1748-6.
6
Chromium 10× Single-Cell 3' mRNA Sequencing of Tumor-Infiltrating Lymphocytes.肿瘤浸润淋巴细胞的铬10×单细胞3' mRNA测序
Methods Mol Biol. 2019;1979:87-110. doi: 10.1007/978-1-4939-9240-9_7.
7
Comparative Analysis of Droplet-Based Ultra-High-Throughput Single-Cell RNA-Seq Systems.基于液滴的超高通量单细胞 RNA-Seq 系统的比较分析。
Mol Cell. 2019 Jan 3;73(1):130-142.e5. doi: 10.1016/j.molcel.2018.10.020. Epub 2018 Nov 21.
8
Single-Cell Tagged Reverse Transcription (STRT-Seq).单细胞标记逆转录测序（STRT-Seq）。
Methods Mol Biol. 2019;1979:133-153. doi: 10.1007/978-1-4939-9240-9_9.
9
Single-cell barcoding and sequencing using droplet microfluidics.基于液滴微流控技术的单细胞条码标记与测序
Nat Protoc. 2017 Jan;12(1):44-73. doi: 10.1038/nprot.2016.154. Epub 2016 Dec 8.
10
scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3' mRNA profiling.scFTD-seq：基于冻融裂解的、便于携带的高度分布式单细胞 3' mRNA 分析方法。
Nucleic Acids Res. 2019 Feb 20;47(3):e16. doi: 10.1093/nar/gky1173.
引用本文的文献
1
Integration of hyperspectral imaging and transcriptomics from individual cells with SpectralSeq.利用SpectralSeq将高光谱成像与单个细胞的转录组学相结合。
Genome Res. 2025 Aug 1;35(8):1809-1820. doi: 10.1101/gr.280014.124.
2
Microglia and CD8+ T cell activation precede neuronal loss in a murine model of spastic paraplegia 15.在痉挛性截瘫15型小鼠模型中，小胶质细胞和CD8 + T细胞激活先于神经元丢失。
J Exp Med. 2025 Jul 7;222(7). doi: 10.1084/jem.20232357. Epub 2025 Apr 23.
3
RING1 missense variants reveal sensitivity of DNA damage repair to H2A monoubiquitination dosage during neurogenesis.RING1 错义变异揭示了神经发生过程中 DNA 损伤修复对 H2A 单泛素化剂量的敏感性。
Nat Commun. 2024 Sep 10;15(1):7931. doi: 10.1038/s41467-024-52292-8.
4
Single cell RNA-seq: a novel tool to unravel virus-host interplay.单细胞RNA测序：揭示病毒与宿主相互作用的新型工具。
Virusdisease. 2024 Mar;35(1):41-54. doi: 10.1007/s13337-024-00859-w. Epub 2024 Mar 9.
5
Data normalization for addressing the challenges in the analysis of single-cell transcriptomic datasets.用于解决单细胞转录组数据集分析中挑战的数据标准化。
BMC Genomics. 2024 May 6;25(1):444. doi: 10.1186/s12864-024-10364-5.
6
Insect Insights at the Single-Cell Level: Technologies and Applications.昆虫单细胞水平的研究进展：技术与应用
Cells. 2023 Dec 31;13(1):91. doi: 10.3390/cells13010091.
7
Computational single cell oncology: state of the art.计算单细胞肿瘤学：现状
Front Genet. 2023 Nov 8;14:1256991. doi: 10.3389/fgene.2023.1256991. eCollection 2023.
8
CRISPR screening in hematology research: from bulk to single-cell level.CRISPR 筛选在血液学研究中的应用：从群体到单细胞水平。
J Hematol Oncol. 2023 Oct 24;16(1):107. doi: 10.1186/s13045-023-01495-5.
9
Research progress on the application of single-cell sequencing in autoimmune diseases.单细胞测序技术在自身免疫性疾病中的应用研究进展。
Genes Immun. 2023 Oct;24(5):220-235. doi: 10.1038/s41435-023-00216-9. Epub 2023 Aug 7.
10
Microfluidics-free single-cell genomics with templated emulsification.无微流控的模板乳化单细胞基因组学。
Nat Biotechnol. 2023 Nov;41(11):1557-1566. doi: 10.1038/s41587-023-01685-z. Epub 2023 Mar 6.
本文引用的文献
1
Exponential scaling of single-cell RNA-seq in the past decade.单细胞 RNA-seq 在过去十年中的指数级扩展。
Nat Protoc. 2018 Apr;13(4):599-604. doi: 10.1038/nprot.2017.149. Epub 2018 Mar 1.
2
Global and targeted approaches to single-cell transcriptome characterization.全局和靶向单细胞转录组特征分析方法。
Brief Funct Genomics. 2018 Jul 1;17(4):209-219. doi: 10.1093/bfgp/elx025.
3
Comparative Analysis of Single-Cell RNA Sequencing Methods.单细胞 RNA 测序方法的比较分析。
Mol Cell. 2017 Feb 16;65(4):631-643.e4. doi: 10.1016/j.molcel.2017.01.023.
4
Seq-Well: portable, low-cost RNA sequencing of single cells at high throughput.Seq-Well：高通量、便携式、低成本的单细胞 RNA 测序。
Nat Methods. 2017 Apr;14(4):395-398. doi: 10.1038/nmeth.4179. Epub 2017 Feb 13.
5
Massively parallel digital transcriptional profiling of single cells.大规模平行数字化单细胞转录组分析。
Nat Commun. 2017 Jan 16;8:14049. doi: 10.1038/ncomms14049.
6
Single-Cell RNA-Sequencing Reveals a Continuous Spectrum of Differentiation in Hematopoietic Cells.单细胞RNA测序揭示造血细胞分化的连续谱系
Cell Rep. 2016 Feb 2;14(4):966-977. doi: 10.1016/j.celrep.2015.12.082. Epub 2016 Jan 21.
7
Scalable microfluidics for single-cell RNA printing and sequencing.用于单细胞RNA打印和测序的可扩展微流体技术。
Genome Biol. 2015 Jun 6;16(1):120. doi: 10.1186/s13059-015-0684-3.
8
The technology and biology of single-cell RNA sequencing.单细胞 RNA 测序技术与生物学。
Mol Cell. 2015 May 21;58(4):610-20. doi: 10.1016/j.molcel.2015.04.005.
9
Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.利用纳升液滴对单个细胞进行高度并行的全基因组表达谱分析。
Cell. 2015 May 21;161(5):1202-1214. doi: 10.1016/j.cell.2015.05.002.
10
Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells.应用于胚胎干细胞的单细胞转录组学的液滴条形码技术。
Cell. 2015 May 21;161(5):1187-1201. doi: 10.1016/j.cell.2015.04.044.
Zotero 插件