CS202210140_288
CGE_287 (CS202210140_288)
Hierarchy: CS202210140_486 > CS202210140_288
PURL: https://purl.brain-bican.org/taxonomy/CS202210140/CS202210140_neurons/CS202210140_288
Labelset: Cluster (Rank: 1)
Parent Cell Set: CGE interneuron (CS202210140_486)
Cell Ontology Term: lamp5 GABAergic cortical interneuron (CL:4023011)
Rationale: Supported by marker expression and annotation transfer from MTG. More numerous in primates and molecularly similar to hippocampal interneurons
| Rationale DOIs |
|---|
| https://doi.org/10.1038/s41586-020-2781-z |
| Marker Genes |
|---|
| FOXG1 |
| NR2F1 |
| DLX1 |
| LAMP5 |
| LHX6 |
| GAD2 |
Transferred annotations:
| Transferred cell label | Source taxonomy | Source node accession | Algorithm name | Comment |
|---|---|---|---|---|
| Lamp5 | https://purl.brain-bican.org/taxonomy/AIT_MTG/AIT_MTG.json | CrossArea_subclass:89f956fe2e | 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 | 287 |
| Class auto_annotation | NEUR |
| Neurotransmitter auto_annotation | GABA |
| Neuropeptide auto_annotation | CBLN CCK CHGA CHGB CORT CRH IGF NAMPT NUCB NXPH SCG SST UBL proSAAS |
| Subtype auto_annotation | INT-LAMP5 |
| Transferred MTG Label | Lamp5 |
| Top three regions | Cerebral cortex: 53.6%, Amygdala: 17.5%, Hippocampus: 15.0% |
| Top three dissections | Human M1C: 6.2%, Human MEC: 5.8%, Human BL: 4.1% |
| Top Enriched Genes | MYH11, LINC00298, HAPLN1, AC092819.3, AC137770.1, EYA4, KIT, TRPC3, AC132803.1, RELN |
| Number of cells | 18571.0 |
| DoubletFinder score | 0.01761695 |
| Total UMI | 14697.86716 |
| Fraction unspliced | 0.689202846 |
| Fraction mitochondrial | 0.008853232 |
| H19.30.002 | 6239.0 |
| H19.30.001 | 5996.0 |
| H18.30.002 | 5950.0 |
| H18.30.001 | 386.0 |
| Fraction cells from top donor | 0.335953907 |
| Number of donors | 4.0 |
| subcluster_id | None |