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Series GSE104775 Query DataSets for GSE104775
Status Public on Mar 07, 2018
Title TREM2 Gene Dosage Increase Reprograms Microglia Responsivity and Ameliorates Pathological Phenotypes in Alzheimer’s Disease Models
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary TREM2 BAC transgenic mice with elevated expression of human TREM2 in microglia under its endogenous regulation without overexpression of other TREM-like genes on the BAC were generated and crossed with 5xFAD mice, an mouse model of AD. Transcriptome and gene coexpression analyses were performed to obtain chronical view of TREM gene dosage dependent changes in the context of amyloid pathology. The results confer strong evidence that increased TREM2 alters brain transcriptome network response only in the context of a disease state and with an overall rescuing effect in 5xFAD mice.
 
Overall design Brain cortical tissues were dissected from WT, BAC-TREM2, 5xFAD and 5xFAD/BAC-TREM2 at 2, 4 and 7 months of age. RNA was extracted using Qiagen RNeasy kit. Libraries prepared using the Illumina TruSeq RNA Library Prep Kit v2 and sequenced on an Illumina HiSeq4000 sequencer using strand-specific, paired-end, 69-mer sequencing protocols to a minimum read depth of 30 million reads per sample. Reads were aligned to mouse genome mm10 using the STAR aligner with default settings. Read counts for individual genes were obtained using HTSeq.
 
Contributor(s) Lee CY, Daggett A, Gu X, Jiang L, Langfelder P, Zhao Y, Li X, Wang N, Park CC, Cooper Y, Ferando I, Mody I, Coppola G, Xu H, Yang XW
Citation(s) 29518357
Submission date Oct 10, 2017
Last update date Jul 25, 2021
Contact name Giovanni Coppola
E-mail(s) gcoppola@ucla.edu
Phone 310-794-4172
Organization name UCLA
Department Psychiatry and Neurology
Lab Neurogenetics
Street address 1524 Gonda, 695 Charles Young Drive South
City Los Angeles
State/province CA
ZIP/Postal code 90095
Country USA
 
Platforms (1)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (72)
GSM2807607 2m-77-2_BAC-TREM2
GSM2807608 2m-77-3_5xFAD
GSM2807609 2m-78-1_5xFAD/BAC-TREM2
Relations
BioProject PRJNA413798
SRA SRP119675

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE104775_RAW.tar 12.5 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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