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White, Rachael edited this page Jul 22, 2022 · 2 revisions
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Important metadata definitions associated with the primary dataset:

Cell lines represented

Single-cell data was originally collected from organoids derived from 3 main cell lines (ND, GIH6, GIH7) from the Tau Consortium in conjunction with the Neural Stem Cell Institute. Each line encompasses an FTD mutant version and the corresponding CRISPR-corrected isogenic control. These iPSC lines were differentiated into cerebral organoids and subjected to single-cell RNA sequencing at 2, 4, and 6 months.

Our application analyzes all 7 represented cell lines collectively.

Cell Line Key

Line Wildtype/mutant
ND-B06 Wildtype
ND-B09 Mutant
GIH6-E11 Wildtype
GIH6-A02 Mutant
GIH7-F02 Wildtype
GIH7-B12 Wildtype
GIH7-A01 Mutant

In the dataset, "wildtype" and "mutant" are denoted by "V337V" and "V337M", respectively.

Cell types represented

Bowles et al. clustered the single cells of this data set into 16 primary neuronal cell type clusters. Cell types were identified by both automated and expert cell type annotation. The identified categories are represented as follows:

Cell Type Key

  • Ast - astrocytes
  • ExDp1- excitatory deep layer 1
  • ExDp2- excitatory deep layer 2
  • ExM- maturing excitatory
  • ExM-U- maturing excitatory upper enriched
  • ExN- newborn excitatory
  • Glia- unspecified glia/non-neuronal cells
  • InCGE- interneurons caudal ganglionic eminence
  • InMGE- interneurons medial ganglionic eminence
  • IP- intermediate progenitors
  • OPC- oligodendrocyte precursor cells
  • oRG- outer radial glia
  • PgG2M- cycling progenitors (G2/M phase)
  • PgS- cycling progenitors (S phase)
  • UN- unspecified neurons
  • vRG- ventricular radial glia.