Single-cell RNA-seq using 10X Genomics

Previously method 31 (link) were performed by CapitalBio Technology, Beijing. Briefly, the cell suspension was loaded onto the Chromium single cell controller (10× Genomics) to generate single-cell gel beads. Captured cells were lysed, and RNA were barcoded through reverse transcription and finally the cDNA was generated. Single-cell RNA-seq libraries were prepared using Single Cell 3' Library and Gel Bead Kit V3, and sequenced using an Illumina Novaseq6000 sequencer with a sequencing depth of at least 100,000 reads per cell with pair-end 150 bp (PE150) reading strategy.

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Gao Y., Shi Y., Wei M., Yang X., Hao Y., Liu H., Zhang Y., Zhou L., Hu G, & Yang R. (2024). Muscularis macrophages controlled by NLRP3 maintain the homeostasis of excitatory neurons. International Journal of Biological Sciences, 20(7), 2476-2490.

Publication 2024

Chromium single cell controller Novaseq6000 sequencer

Corresponding Organization : Nankai University

Other organizations : Tianjin Medical University General Hospital, Tianjin Medical University

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Variable analysis

independent variables

Method 31 performed by CapitalBio Technology, Beijing

dependent variables

Single-cell RNA-seq libraries prepared using Single Cell 3' Library and Gel Bead Kit V3
Sequenced using an Illumina Novaseq6000 sequencer with a sequencing depth of at least 100,000 reads per cell with pair-end 150 bp (PE150) reading strategy

control variables

Cell suspension loaded onto the Chromium single cell controller (10× Genomics) to generate single-cell gel beads
Captured cells lysed, and RNA barcoded through reverse transcription and cDNA generated

positive controls

None specified

negative controls

None specified

Annotations

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