CS202210140_237
MGE_236 (CS202210140_237)
Hierarchy: CS202210140_484 > CS202210140_237
PURL: https://purl.brain-bican.org/taxonomy/CS202210140/CS202210140_neurons/CS202210140_237
Labelset: Cluster (Rank: 1)
Parent Cell Set: MGE interneuron (CS202210140_484)
Cell Ontology Term: sst GABAergic cortical interneuron (CL:4023017)
Rationale: Exclude ADARB2 because SST is expressed in some LAMP5-LHX6 interneurons
| Rationale DOIs |
|---|
| https://doi.org/10.1038/s41586-020-2781-z |
| Marker Genes |
|---|
| FOXG1 |
| NR2F1 |
| DLX1 |
| LHX6 |
| GAD2 |
| SST |
Transferred annotations:
| Transferred cell label | Source taxonomy | Source node accession | Algorithm name | Comment |
|---|---|---|---|---|
| Pvalb | https://purl.brain-bican.org/taxonomy/AIT_MTG/AIT_MTG.json | CrossArea_subclass:5bcef2988c | 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 | 236 |
| Class auto_annotation | NEUR |
| Neurotransmitter auto_annotation | GABA |
| Neuropeptide auto_annotation | CCK CHGA CHGB CORT IGF NAMPT NPPC NPY NUCB NXPH PNOC SCG SST TAC UBL VGF proSAAS |
| Subtype auto_annotation | INT-SST |
| Transferred MTG Label | Pvalb |
| Top three regions | Hippocampus: 61.2%, Cerebral cortex: 21.0%, Amygdala: 16.5% |
| Top three dissections | Human CA1C-CA3C: 17.3%, Human CA1U-CA2U-CA3U: 11.6%, Human CA1R-CA2R-CA3R: 8.6% |
| Top Enriched Genes | LHX6, MYO5B, CRHBP, PRTG, AC022905.1, NGF, TRG-AS1, RGS5, TAC1, RASGRF2-AS1 |
| Number of cells | 4303.0 |
| DoubletFinder score | 0.033137208 |
| Total UMI | 28794.38183 |
| Fraction unspliced | 0.710266892 |
| Fraction mitochondrial | 0.005505357 |
| H19.30.002 | 1320.0 |
| H19.30.001 | 1367.0 |
| H18.30.002 | 1605.0 |
| H18.30.001 | 11.0 |
| Fraction cells from top donor | 0.372995584 |
| Number of donors | 4.0 |
| subcluster_id | None |