|
| Antibodies |
|
| Anti-Pvalb |
Swant |
PV-25 |
| Anti-Pax6 |
Abcam |
ab2237 |
| Anti-HuC/D |
Invitrogen |
A-21271 |
| Anti-NeuN |
Millipore |
MAB377 |
| Goat anti-Mouse Alexa Fluor 647 |
Abcam |
ab150115 |
|
| Experimental Models |
|
| Foxd1-Cre |
C67BL6/CD1 |
JAX#012463 |
| Isl1-flox |
C67BL6/CD1 |
Pan et al.90
|
| Lhx1-flox |
C67BL6/CD1 |
- |
| Nkx2.2-Cre |
C67BL6/CD1 |
JAX#026880 |
| Dlx1/2-flox |
C67BL6/CD1 |
- |
| CD1 Wild type mice |
CD1 |
Charles River Laboratories |
|
| Chemicals, peptides, and recombinant proteins |
|
| Hibernate-E |
Thermo Fisher Scientific |
Cat# A1247601 |
| Hibernate-A |
Thermo Fisher Scientific |
Cat# A1247501 |
| B-27 Supplement |
Thermo Fisher Scientific |
Cat# 17504044 |
| GlutaMAX Supplement |
Thermo Fisher Scientific |
Cat# 35050061 |
| Hibernate-E Minus Calcium |
BrainBits |
Cat# HECA500 |
| Hibernate-A Minus Calcium |
BrainBits |
Cat# HACA500 |
| RNase inhibitor |
Promega |
Cat# N2615 |
| DNase I |
Sigma-Aldrich |
Cat# 4716728001 |
| Trypan Blue |
Thermo Fisher Scientific |
Cat# 15250061 |
| ProLong Gold Antifade Mountant |
Thermo Fisher Scientific |
Cat# P36934
|
| Aqua-Poly/Mount |
Fisher Scientific |
Cat# 18606-20 |
|
| Critical commercial assays |
|
| Chromium Single Cell 3' Library and Gel Bead Kit v3 |
10x Genomics |
Cat# 1000075 |
| Chromium Single Cell 3' Library and Gel Bead Kit v3.1 |
10x Genomics |
Cat# 1000268 |
| 10x Genomics Chromium Single Cell ATAC v1.1 |
10x Genomics |
Cat# 1000175 |
| 10x Genomics Xenium |
10x Genomics |
Cat# 1000462 + Custom Genes |
|
| Deposited data |
|
| ScRNA-Seq and scATAC-Seq Raw |
This paper |
GSE28449 |
| ScRNA-Seq and scATAC-Seq Processed |
This paper |
10.5281/zenodo.14292830 |
| Xenium Processed |
This paper |
10.5281/zenodo.14292830 |
|
| Oligonucleotides |
|
| Mm-Sp8-C3 |
ACDBio |
#547521-C3 |
| Mm-Sp9-C1 |
ACDBio |
#564531 |
| Mm-Pitx2-C2 |
ACDBio |
#412841-C2 |
| Mm-Irx5-C1 |
ACDBio |
#513871 |
| Mm-Meis2-C2 |
ACDBio |
#512841-C2 |
| Mm-Npw-C1 |
ACDBio |
#495671 |
| Mm-Pnoc-C2 |
ACDBio |
#437881-C2 |
| Mm-Slc32a1-C2 |
ACDBio |
#319191-C2 |
| Mm-Slc17a6-C3 |
ACDBio |
#319171-C3 |
| Mm-Gal-C1 |
ACDBio |
#400961 |
|
| Software and algorithms |
|
| CellRanger v5 |
10x Genomics |
http://10xgenomics.com
|
| Cell Ranger ATAC (v2) |
10x Genomics |
http://10xgenomics.com
|
| Cytoscape (v3.10.3) |
|
https://cytoscape.org/
|
| DeepLabCut (v2.3.4) |
|
https://github.com/DeepLabCut/DeepLabCut
|
| All R and Python codes |
|
https://github.com/dkim195/HyDD2
|
