To monitor for consistent, high-quality sampling of single-cell and single-nucleus RNA-Seq data, eight controls (4 negative and 4 positive) were included in each Amplification set (8 controls + 88 samples). A control strip included 2 wells without cells (termed ERCC for External RNA Controls Consortium, negative), 2 wells without cells or ERCC (termed NTC for No Template Control, negative), 2 wells with 10 pg Control RNA (mouse) provided in the Takara SMART-Seq v4 kit (termed Control RNA, positive), and 2 wells with either 10 pg of Mouse Whole Brain Total RNA (termed MouseWhole, Zyagen MR-201, positive) or 10 pg of Human Universal Reference Total RNA (termed UHR, Takara 636538, positive). Controls for mouse and human data is available to download via the links below, and detailed methods are described in the Technical Whitepapers.
Note that separate control sets are available for samples released in June 2018 and October 2018.
Human MTG: Controls Data | .gtf File
Human VISp and ACC: Controls Data | .gtf File
Mouse VISp & ALM: Controls Data | .gtf File
Mouse ACA & MOp (cells and nuclei): Controls Data | .gtf File
This third section "Putting it all together" is a key to link research focus to related scientific tool to primary paper to taxonomy used.
This second section "How to..." lists more technical resources such as tutorials, protocols, use cases, and more.
This first section "What is..." lists introductory information on cell type topics.
