Data files

pAstros were transduced with control or Ngn2-expressing retrovirus. 2DPT, media was replaced with differentiation media in absence of presence of AMG; 20DPT, DsRed-positive cells were sorted, barcoded with CMOs and analyzed by scRNAseq via 10XGenomics platform.

pAstros were transduced with control or Ngn2-expressing retrovirus. 2DPT, media was replaced with differentiation media in absence of presence of AMG; 5DPT, DsRed-positive cells were sorted, barcoded with CMOs and analyzed by scRNAseq via 10XGenomics platform

Human IPSCs from control or patients with NDUFS4 mutations were differentiated into proliferating and non-proliferating astrocytes. Three control and 3 patients lines were analyzed. Per each line, 3 biological replicates were collected at 3 stages: IPSC, proliferating astrocyte and non-proliferating astrocytes.

To determine whether CD8+ T cells contribute to oligodendrocyte and myelin pathology in 5xFAD mice, we treated 6-months old 5xFAD mice with antibodies against CD8. For the depletion of CD8+ T cells mice, 5xFAD mice aged 6 months were intraperitoneally injected with anti-CD8 antibody (BioXCell, BP0061) and their respective isotype controls (BioXCell, BE0119) twice a week for a total of 6 weeks.For 10X genomic experiments, mice were deeply anesthetized and perfused with cold PBS. Each brain was ...

Brain sections were collected from mouse model of amyloidosis and analyzed by MERFISH

Around 15,000 CD45lowSiglec-H+ and CD45-O1+ single cells were sorted per sample using a FACSAria III (BD Biosciences) before being encapsulated into droplets with the Chromium Controller (10x Genomics) and processed according to the manufacturer’s specifications. Briefly, every transcript captured in all the cells encapsulated with a bead was uniquely barcoded using a combination of a 16-base pair (bp) 10x barcode and a 10-bp unique molecular identifier (UMI). Complementary DNA libraries ready ...

Current spatial transcriptomics methods provide molecular and spatial information but no morphological readout. Here, we present STEM - a method that correlates multiplexed error-robust FISH with electron microscopy from neighboring tissue sections of the same sample. STEM links transcriptional and spatial organization of single cells with ultrastructural morphology of the tissue in vivo. Using STEM to characterize demyelinated white-matter lesions allowed us to link morphology of myelin-laden ...