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Sample GSM2769671 Query DataSets for GSM2769671
Status Public on Feb 28, 2018
Title Day4 microglia bio replicate 7
Sample type RNA
 
Source name microglia from day 4 post-infection 6-week old mouse brains
Organism Mus musculus
Characteristics strain background: C57BL/6
strain: B6.Cg-Gt(ROSA)26Sortm14(CAG-tdTomato)Hze/J (Jackson)
age: 6 weeks
infection status: day 4 post-MHV infection
time point: day 4 post-MHV-infection
tissue: brain
cell type: FACS-sorted microglia
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated ds -cDNA were prepared according to the standard Affymetrix protocol from 1 ng total RNA (3' IVT Pico Reagent Kit, Affymetrix).
 
Hybridization protocol Following fragmentation, ds-cDNA were hybridized for 18 hr at 45C with 60 rpm rotation on Affymatrix mouse Clariom S array.
Scan protocol Clariom S array was scanned using Affymatrix Model 3000 scanner.
Data processing Partek Genomics Suite was used to analyze the data. RMA analysis was used. Anova-generated p-values were corrected using false-discovery rate. Genes with adjusted p-values <0.05 and a fold-change >2 was considered significant.
affymetrix-algorithm-name = sst-rma-gene-full
affymetrix-algorithm-version = 1.0
program-name = Expression Console
program-version = 1.4.1.46
 
Submission date Sep 01, 2017
Last update date Feb 28, 2018
Contact name Dorthea Wheeler
E-mail(s) dorthea-wheeler@uiowa.edu
Organization name University of Iowa
Street address 51 Newton Road
City iowa City
State/province IA
ZIP/Postal code 52242
Country USA
 
Platform ID GPL23038
Series (2)
GSE103380 Gene expression of microglia from naïve or MHV infected mouse brains
GSE103727 Gene expression of macrophages and microglia from naïve or MHV infected mouse brains

Data table header descriptions
ID_REF
VALUE normalized

Data table
ID_REF VALUE
AFFX-BkGr-GC03_st 5.77857
AFFX-BkGr-GC04_st 5.35734
AFFX-BkGr-GC05_st 5.46539
AFFX-BkGr-GC06_st 5.27975
AFFX-BkGr-GC07_st 5.01693
AFFX-BkGr-GC08_st 4.13134
AFFX-BkGr-GC09_st 3.53405
AFFX-BkGr-GC10_st 3.12618
AFFX-BkGr-GC11_st 2.96654
AFFX-BkGr-GC12_st 2.72902
AFFX-BkGr-GC13_st 2.5237
AFFX-BkGr-GC14_st 2.45589
AFFX-BkGr-GC15_st 2.37403
AFFX-BkGr-GC16_st 2.41456
AFFX-BkGr-GC17_st 2.4369
AFFX-BkGr-GC18_st 2.61507
AFFX-BkGr-GC19_st 4.63615
AFFX-BkGr-GC20_st 4.88291
AFFX-BkGr-GC21_st 4.78882
AFFX-BkGr-GC22_st 5.01578

Total number of rows: 28846

Table truncated, full table size 749 Kbytes.




Supplementary file Size Download File type/resource
GSM2769671_07_D4-3_Day4_08-23-16_S2_Clariom_S_Mouse_.CEL.gz 982.7 Kb (ftp)(http) CEL
GSM2769671_07_D4-3_Day4_08-23-16_S2_Clariom_S_Mouse_.sst-rma-gene-full.chp.gz 202.9 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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