CS202210140_297
CGE_296 (CS202210140_297)
Hierarchy: CS202210140_486 > CS202210140_297
PURL: https://purl.brain-bican.org/taxonomy/CS202210140/CS202210140_neurons/CS202210140_297
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 | 296 |
| 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: 72.9%, Amygdala: 10.5%, Hippocampus: 9.0% |
| Top three dissections | Human M1C: 8.1%, Human MEC: 6.2%, Human MTG: 4.7% |
| Top Enriched Genes | EREG, VIP, TAC3, IQGAP2, AREG, CXCL14, PTHLH, AC011990.1, SP8, NPR3 |
| Number of cells | 9524.0 |
| DoubletFinder score | 0.025077632 |
| Total UMI | 12499.38608 |
| Fraction unspliced | 0.658416429 |
| Fraction mitochondrial | 0.009640799 |
| H19.30.002 | 2933.0 |
| H19.30.001 | 3154.0 |
| H18.30.002 | 3154.0 |
| H18.30.001 | 283.0 |
| Fraction cells from top donor | 0.331163377 |
| Number of donors | 4.0 |
| subcluster_id | None |