CS202210140_291
CGE_290 (CS202210140_291)
Hierarchy: CS202210140_486 > CS202210140_291
PURL: https://purl.brain-bican.org/taxonomy/CS202210140/CS202210140_neurons/CS202210140_291
Labelset: Cluster (Rank: 1)
Parent Cell Set: CGE interneuron (CS202210140_486)
Cell Ontology Term: vip GABAergic cortical interneuron (CL:4023016)
| Rationale DOIs |
|---|
| https://doi.org/10.1038/s41586-020-2781-z |
| Marker Genes |
|---|
| FOXG1 |
| NR2F1 |
| DLX1 |
| ADARB2 |
| CXCL14 |
| GAD2 |
| VIP |
Transferred annotations:
| Transferred cell label | Source taxonomy | Source node accession | Algorithm name | Comment |
|---|---|---|---|---|
| Vip | https://purl.brain-bican.org/taxonomy/AIT_MTG/AIT_MTG.json | CrossArea_subclass:082c817b6f | We performed PCA (50 components) on our full dataset, trained a random forest classifier (scikit-learn, class_ weight=‘balanced’, max_depth=50) on the MTG labels, and then predicted labels for all cells. We labeled each cluster with the mode of its constituent cells if two conditions were met: more than 0.8 of predicted labels matched the mode, and the mean probability of these pre- dictions was greater than 0.8. |
Author annotation fields:
| Author annotation | Value |
|---|---|
| Cluster ID | 290 |
| Class auto_annotation | NEUR |
| Neurotransmitter auto_annotation | GABA |
| Neuropeptide auto_annotation | CBLN CCK CHGA CHGB CRH IGF NAMPT NPPC NUCB NXPH PTHLH SCG TAC UBL VGF VIP proSAAS |
| Subtype auto_annotation | INT-VIP |
| Transferred MTG Label | Vip |
| Top three regions | Cerebral cortex: 83.0%, Hippocampus: 8.5%, Amygdala: 5.2% |
| Top three dissections | Human MTG: 7.1%, Human M1C: 5.4%, Human A40: 3.9% |
| Top Enriched Genes | SHISA8, VIP, SCTR, FLT1, SLC22A3, KMO, PTHLH, GGT4P, CXCL12, LINC02488 |
| Number of cells | 20794.0 |
| DoubletFinder score | 0.016590896 |
| Total UMI | 12325.80393 |
| Fraction unspliced | 0.663485713 |
| Fraction mitochondrial | 0.006771221 |
| H19.30.002 | 6625.0 |
| H19.30.001 | 7226.0 |
| H18.30.002 | 6588.0 |
| H18.30.001 | 355.0 |
| Fraction cells from top donor | 0.347504088 |
| Number of donors | 4.0 |
| subcluster_id | None |