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Series GSE143836 Query DataSets for GSE143836
Status Public on Oct 13, 2020
Title Neuron-Derived Estrogen is Critical for Astrocyte Activation and Neuroprotection of the Ischemic Brain
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We examined the transcriptional changes modulated in ischemic brain of fore brain specific aromatase knockout mice (FBN-ARO-KO) by performing global transcriptome analysis.Total RNA was isolated from FLOX and FBN-ARO-KO mice that underwent 20-minute CCA occlusion, followed by 24-hour reperfusion. The collected hippocampi samples were subjected to RNA isolation and Illumina TruSeq RNA sample preparation and sequencing was done using UT Health San Antonio genomics core facility protocol. We observed that some of the key pathways that regulate astrocyte reactivity, such as RhoA signaling, actin-based motility by Rho signaling, signaling by Rho family GTPases, and protein ubiquitination, NRF2-mediated oxidative stress response pathways were significantly altered in FBN-ARO-KO+GCI mice.
Overall design Total RNA was isolated from female FLOX and FBN-ARO-KO mice that underwent 20-minute CCA occlusion, followed by 24-hour reperfusion. RNA was isolated from the hippocampi using the RNeasy mini kit. Illumina TruSeq RNA sample preparation was performed following manufacturer's protocol. Samples were run on an Illumina HiSeq 3000 in duplicate. The combined raw reads were aligned to UCSC mm9 and genes were annotated by Tophat. Genes were annotated and quantified by HTSeq-DESeq pipeline.
Contributor(s) Sareddy GR, Chen Y, Vadlamudi RK
Citation(s) 32817249
Submission date Jan 16, 2020
Last update date Oct 13, 2020
Contact name YI ZOU
Organization name UTHSA-GCCRI
Street address 8403 Floyd Curl Drive
State/province TX
ZIP/Postal code 78229
Country USA
Platforms (1)
GPL21493 Illumina HiSeq 3000 (Mus musculus)
Samples (4)
GSM4275252 FLOX-control_GCI_1
GSM4275253 FLOX-control_GCI_2
BioProject PRJNA601790
SRA SRP242321

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE143836_RAW.tar 390.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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