Key Resources Table
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| LHX2 | Invitrogen | Cat# PA5-78287 |
| LHX5 | Invitrogen | Cat# PA5-47828 |
| GABA | Invitrogen | Cat# PA5-32241 |
| vGLUT2 | Millipore | Cat# MAB5504 |
| GAD1/GAD67 | Invitrogen | Cat# MA5-24909 |
| GAD2/GAD65 | Invitrogen | Cat# PA5-22260 |
| ECEL1 | abcam | Cat# ab234710 |
| SPP1 | Invitrogen | Cat# MA5-17180 |
| PTCHD1 | Invitrogen | Cat# PA5-48191 |
| PTCHD1 | abcam | Cat# ab109407 |
| ERBB4 | Invitrogen | Cat# MA1-861 |
| DLX2 | Invitrogen | Cat# 702009 |
| TCF7L2 | Cell Signaling | Cat# 2569S |
| MAP2 | Millipore | Cat# MAB3418 |
| LHX1 | Origene | Cat# TA504527 |
| GEPHYRIN | R&D System | Cat# MAB7519 |
| SK2 | Millipore | Cat#MABN1832 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| mTeSR1 | Stem Cell Technologies | Cat# 05875 |
| DMEM-F12 | Life Technologies | Cat# 11330057 |
| Neurobasal Media | Life Technologies | Cat# 2110349 |
| FBS | Life Technologies | Cat# 10437028 |
| Amino acids, non-essential | Life Technologies | Cat# 11140050 |
| Penicillin/Streptomycin | Life Technologies | Cat# 15140–122 |
| Glutamax | Life Technologies | Ca# 35050 |
| β-Mercaptoethanol | Sigma | Ca# M7522 |
| N2 | Life Technologies | Cat# 17502–048 |
| B27 | Life Technologies | Cat# 17504–044 |
| B27 supplement without vitamin A | Life Technologies | Cat# 12587010 |
| bFGF | Millipore | Cat# GF003AF |
| KnockOut Serum Replacement | Life Technologies | Cat# 10828–028 |
| HBSS | Life Technologies | Cat# 14170112 |
| Matrigel | BD | Cat# 354230 |
| Dextrose | Sigma | Cat# G7021 |
| Poly-D-Lysine | Xona | Cat# XC PDL |
| Y-27632 | Stem Cell Technologies | Cat# 72304 |
| Dispase (100ml) | Stem Cell Technologies | Cat# 07913 |
| Accutase (100ml) | Stem Cell Technologies | Cat# AT104 |
| LDN-193189 | Sigma | Cat# SML0559 |
| SB431542 | Abcam | Cat# ab120163 |
| BMP7 | GIBCO | Cat# PHC9544 |
| SHH | R&D Systems | Cat# 464-SH-200 |
| Puromycin | Sigma | Cat# P8833 |
| BDNF | Prepotech | Cat# 450–02 |
| Ascorbic acid | Sigma | Cat# A92902 |
| O.C.T compound | Tissue-Tek | Cat# 4583 |
| Bovine serum albumin | American Bioanalytical | Cat# AB01088 |
| ProLong Gold Antifade Reagent | ThermoFisher | Cat# P36930 |
| Critical Commercial Assays | ||
| Papain Dissociation System | Worthington Biochemical Corporation | Cat# LK003150 |
| Human Stem Cell Nucleofector Kit 1 | Lonza | Cat# VPH-5012 |
| RNeasy mini kit | QIAGEN | Cat# 74104 |
| RNase-Free DNase Set | QIAGEN | Cat# 79254 |
| iScript cDNA synthesis kit | Biorad | Cat# 1708891 |
| SsoFast EvaGreen Supermix | Biorad | Cat# 1725201 |
| Deposited Data | ||
| Raw and proposed scRNA-seq | This paper | GEO:GSE210720 |
| scRNA-seq for human fetal dorsal and ventral thalamus | 35 | https://data.nemoarchive.org/biccn/grant/u01_devhu/kriegstein/transcriptome/scell/10x_v2/human/processed/counts/ |
| H3K27ac ChIP-seq in distinct human brain regions | 28 | GEO: GSE40465 |
| Reference transcriptome hg19 | N/A | https://support.10xgenomics.com/ |
| RNA in situ hybridization for mouse fetal thalamus | 56 | Allen developing mouse brain atlas |
| Experimental Models: Cell Lines | ||
| HES-3 NKX2-1GFP/w | Elefanty lab, Monash University, Australia | https://www.ncbi.nlm.nih.gov/pubmed/21425409 |
| H1 hESC line | WiCell | https://www.ncbi.nlm.nih.gov/pubmed/9804556/ |
| H1-AAVS1-CAG-GFP | This paper | 17 |
| HES-3-BC4 | This paper | 57 |
| Oligonucleotides | ||
| See Table S1 for oligonucleotides used in this paper | This paper | N/A |
| Other | ||
| U-bottom ultra-low-attachment 96-well plate | Corning | CLS7007-24EA |
| Ultra-low-attachment 6-well plate | Corning | CLS3471-24EA |
| Ultra-low-attachment 24-well plate | Corning | 3473 |
| 35 mm dish (with glass bottom) | MatTek | P35GC-0-10-C |
| Orbital shaker | IKA | KS260 |
| Nucleofector | Lonza | AAB-1001 |
| Software and Algorithms | ||
| CellRanger (v3.0.2) | 10x Genomics | https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest |
| Seurat (v3.0.2) | 58 | https://satijalab.org/seurat/ |
| Monocle (v2.99.3) | 30 | http://cole-trapnell-lab.github.io/monocle-release/ |
| GOstats (v2.46.0) | 59 | https://www.bioconductor.org/packages/release/bioc/html/GOstats.html |
| Bioconductor (v3.8) | N/A | https://www.bioconductor.org/ |
| R (v3.5.0) | N/A | https://www.r-project.org/ |
| GSEA (v4.0.2) | 60 | https://software.broadinstitute.org/gsea/index.jsp |