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Series GSE75246 Query DataSets for GSE75246
Status Public on Jan 26, 2016
Title LPS and brain inflammation
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Normal mice were injected i.p. with LPS or saline. 24h later, perfused brains were dissociated. Cells were fixed, immunolabeled and FACS sorted. RNA was extracted from neuron, astrocyte, and microglial cell populations. Typical RIN=4-5 for neurons, 6-8 for astrocytes, and 5-7 for microglia. Typical RNA yields ~100ng for neurons, ~20ng for microglia, and ~10ng for astrocytes.
cDNA was generated from up to 25 ng of total RNA using Nugen's RNA-Seq method for low-input RNA samples, Ovation RNA-Seq System V2 (NuGEN). (Per manufacturers instructions, total RNA was neither depleted of rRNA nor polyA-selected.) 1 μg of sheared cDNA was taken into further processing, starting at end repair step, using Illumina's TruSeq RNA Sample Preparation Kit v2 (Illumina).
The "SAMID" sample characteristic is a sample identifier internal to Genentech.
The ID of this project in Genentech's ExpressionPlot database is PRJ0005404
 
Overall design Astrocytes, microglia and neurons were sorted from LPS or saline treated mice. n=4 or 5 per group.
 
Contributor(s) Friedman B, Srinivasan K, Hansen D
Citation(s) 27097852
Submission date Nov 20, 2015
Last update date May 15, 2019
Contact name Brad A Friedman
E-mail(s) friedmab@gene.com
Organization name Genentech, Inc.
Department Bioinformatics
Street address 1 DNA Way
City South San Francisco
State/province CA
ZIP/Postal code 94133
Country USA
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (28)
GSM1947162 sample 1 - microglia - lps
GSM1947164 sample 2 - neuron - lps
GSM1947165 sample 3 - microglia - vehicle
Relations
BioProject PRJNA302899
SRA SRP066489

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
GSE75246_RAW.tar 6.8 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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