characteristics.text: 2025-11-18
characteristics.characteristic: ENA first public
characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: WUSM
characteristics.characteristic: INSDC center name
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS27322744
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-16169:Tau-KO-1
characteristics.characteristic: Submitter Id
characteristics.text: 9.5
characteristics.unit: month
characteristics.characteristic: age
characteristics.text: ArrayExpress
characteristics.characteristic: broker name
characteristics.text: not collected
characteristics.characteristic: collection date
characteristics.text: house mouse
characteristics.characteristic: common name
characteristics.text: Protocols: Frozen cortex from 3 mice of the same genotype were pooled as a single sample. Samples were selected based on those being closest to the mean values of hippocampal volumes. Tissue was homogenized using a Dounce homogenizer in 1 mL of lysis buffer (10 mM Tris-HCl, pH = 7.4; 10 mM NaCl, 3 mM MgCl2; 0.005% NP40; and 0.2 U/μl RNase Inhibitor in nuclease-free water at 4°C) and incubated on ice for 15 min. A 30 μm MACS SmartStrainer was used to remove cell debris and large clumps, followed by centrifugation at 500 x g for 5 min at 4°C. After carefully removing the supernatant, the nuclei pellet was resuspended with 5 mL Nuclei wash and resuspension buffer (1% BSA and 0.2 U/μl RNase Inhibitor in 1 X PBS). Then cell debris removal step, centrifugation, and resuspension were repeated 2 times. Only 500 μl of Nuclei wash and resuspension buffer was added into the last resuspension step. This solution was mixed with 900 μl of Sucrose Cushion Buffer I (2.7 mL Nuclei Pure 2M Sucrose Cushion Solution with 300 μl Nuclei Pure Sucrose Cushion Solution and then carefully layered to the top of 500 μl Sucrose Cushion Buffer I in a 2 mL Eppendorf tube. This sucrose gradient was centrifuged at 13,000 x g for 45 min at 4°C. After centrifugation, the nuclear pellet was resuspended by 500 μl Nuclei Wash and Resuspension Buffer. The nuclei concentration was determined using a Countess with pre-DAPI stain. Finally, nuclei concentration was adjusted to ∼1200 nuclei/μl using Nuclei Wash and Resuspension Buffer followed by proceeding to the 10 x Genomics protocol.  Tamoxifen (200 mg/kg) or corn oil were administered at 3 months of age via oral gavage once per day for 5 consecutive days. Isolated nulcei were subjected to droplet-based 3′ end massively parallel single-cell RNA sequencing using Chromium Single Cell 3′ Reagent Kits (10x Genomics) following the manufacturer’s instructions. Isolated nulcei were subjected to droplet-based 3′ end massively parallel single-cell RNA sequencing using Chromium Single Cell 3′ Reagent Kits (10x Genomics) following the manufacturer’s instructions.
characteristics.characteristic: description
characteristics.text: adult
characteristics.characteristic: developmental stage
characteristics.text: P301S+/-;DGAT1/2fl/fl;CX3CR1-CreERT2+/--TAM
characteristics.characteristic: genotype
characteristics.text: not collected
characteristics.characteristic: geographic location (country and/or sea)
characteristics.text: PCfD-TAM1
characteristics.characteristic: individual
characteristics.text: not applicable
characteristics.characteristic: isolate
characteristics.text: Mus musculus
characteristics.characteristic: organism
characteristics.text: Mus musculus
characteristics.characteristic: organism
characteristics.text: cerebral cortex
characteristics.characteristic: organism part
characteristics.text: Mus musculus
characteristics.characteristic: scientific_name
characteristics.text: male
characteristics.characteristic: sex
characteristics.text: C57/BL6
characteristics.characteristic: strain
characteristics.text: Tau-KO-1
characteristics.characteristic: title