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Sample GSM3188488 Query DataSets for GSM3188488
Status Public on Jun 21, 2019
Title PLv IR 1
Sample type RNA
 
Source name PLv from mouse 1 receiving cranial radiation
Organism Mus musculus
Characteristics tissue: brain lateral ventricles
treatment: radiation
Treatment protocol Frozen tissues were used for RNA isolation
Growth protocol Hipp and PLv from mouse brains were isolated and immediately frozen in liquid nitrogen and stored at -80 degrees C.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNAeasy Mini kit (Qiagen) following the instructions of the manufacturer.
Label biotin
Label protocol Biotinylated cDNA were prepared according to the standard Affymetrix protocol from 2ng total RNA Labeling Protocol (Manual Target Preparation for GeneChip® Whole Transcript (WT) Expression ArraysWT Pico Reagent Kit, ©2015 Affymetrix Inc.)
 
Hybridization protocol Following fragmentation, 2.3 µg of single-stranded cDNA were hybridized for 16 hr at 45ºC on Clariom™ S Assay Mouse Array. GeneChips were washed and stained in the GeneChip® Fluidics Station 450 according to GeneChip® Expression AnalysisTechnical Manual, Affymetrix, 2004.
Scan protocol Microarrays were scanned using GeneChip® Scanner 3000 7G
Description Gene expression data from the PLv isolated from mice receiving radiation
Data processing The .CEL files were generated using Affymetrix AGCC software and further processed into expression values using Robust Multiarray Average (RMA) method by Irrizarry et al. The following statistical data analysis (ANOVA unpaired one-way) were performed using the TAC software (Transcriptome Analysis Console) developed by Affymetrix.
 
Submission date Jun 13, 2018
Last update date Jun 21, 2019
Contact name Vivian Capilla-Gonzalez
Organization name CABIMER
Street address Avda. Americo Vespucio 24
City SEVILLA
State/province Sevilla
ZIP/Postal code 41092
Country Spain
 
Platform ID GPL23038
Series (1)
GSE115735 Human mesenchymal stem cells prevent neurological complications of radiotherapy

Data table header descriptions
ID_REF
VALUE log2-rma
DETECTION P-VALUE

Data table
ID_REF VALUE DETECTION P-VALUE
AFFX-BkGr-GC03_st 6.53618 0.85963
AFFX-BkGr-GC04_st 6.67272 0.982641
AFFX-BkGr-GC05_st 6.53618 0.997962
AFFX-BkGr-GC06_st 6.41853 0.999388
AFFX-BkGr-GC07_st 6.26606 0.999078
AFFX-BkGr-GC08_st 4.86003 0.9964
AFFX-BkGr-GC09_st 4.32175 0.994344
AFFX-BkGr-GC10_st 3.61784 0.989742
AFFX-BkGr-GC11_st 3.06536 0.974411
AFFX-BkGr-GC12_st 2.60925 0.923412
AFFX-BkGr-GC13_st 2.26463 0.961491
AFFX-BkGr-GC14_st 2.1413 0.948856
AFFX-BkGr-GC15_st 2.1028 0.956358
AFFX-BkGr-GC16_st 2.26346 0.908581
AFFX-BkGr-GC17_st 2.27967 0.878736
AFFX-BkGr-GC18_st 2.92066 0.790274
AFFX-BkGr-GC19_st 5.58819 0.637452
AFFX-BkGr-GC20_st 5.80293 0.62609
AFFX-BkGr-GC21_st 5.76234 0.61833
AFFX-BkGr-GC22_st 5.8566 0.61554

Total number of rows: 28846

Table truncated, full table size 1049 Kbytes.




Supplementary file Size Download File type/resource
GSM3188488_Vivian13_R81-SVZ1_Clariom_S_Mouse_.CEL.gz 1.1 Mb (ftp)(http) CEL
GSM3188488_Vivian13_R81-SVZ1_Clariom_S_Mouse_.sst-rma-gene-full.chp.gz 320.7 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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