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Sample GSM60604 Query DataSets for GSM60604
Status Public on Nov 14, 2005
Title Mouse-in vivo-4h-PBS
Sample type RNA
Source name Mouse, thymus
Organism Mus musculus
Characteristics mus musculus, three CD-1 mice (males, aged 4-6 weeks), pooled thymic cell suspensions, 4h after intraperitoneal injection of PBS
Extracted molecule total RNA
Extraction protocol For total RNA isolation, TRIreagent (MRC Inc., Cincinnati, OH,USA) was used according to the manufacturer’s protocol. Briefly, up to 1x10E7 cells per ml were lysed with TRIreagent, 200ul of chloroform were added, the mixture centrifuged, and the RNA from the aqueous phase precipitated with isopropanol. The pelleted RNA was washed in 70% ethanol in DEPC-water and resuspended in nuclease-free water. RNA quantity and purity was determined by optical densitiy measurements (OD260/280) and RNA inte Glucocorticoid-receptority by using the 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA,USA), and only high quality RNA was further processed.
Label R-Phycoerythrin
Label protocol The chips were stained and washed in an Affymetrix fluidic station 450 following the EukGE-ws2v4 protocol.
Hybridization protocol On rotation (60 rpm) hybridization at 45C for 16 hours
Scan protocol Fluorescence signals were recorded by an Affymetrix scanner 3000 and image analysis performed with the GCOS software (version 1.2).
Description mus musculus, three CD-1 mice (males, aged 4-6 weeks), pooled thymic cell suspensions, 4h after intraperitoneal injection of PBS
Data processing Data processing and analysis was performed in R using Bioconductor version 1.5. GeneChip raw expression values were normalized and summarized using the robust multiarray analysis (RMA) method proposed by R. Irizarry.
Submission date Jun 09, 2005
Last update date Aug 28, 2018
Contact name Johannes Rainer
Organization name EURAC
Department Center for Biomedicing
Lab Biomedical Informatics
Street address Via Galvani 31
City Bolzano
ZIP/Postal code 39100
Country Italy
Platform ID GPL1261
Series (1)
GSE2843 thymic mouse cells
Reanalyzed by GSE119085

Data table header descriptions
VALUE RMA normalized expression values

Data table
1415670_at 255.388543806779
1415671_at 596.918435045192
1415672_at 955.227128782547
1415673_at 182.423780604439
1415674_a_at 332.320158692788
1415675_at 212.213113691398
1415676_a_at 910.622944223575
1415677_at 173.994754148744
1415678_at 539.664882519794
1415679_at 1175.12621244753
1415680_at 391.532973228818
1415681_at 465.423420506845
1415682_at 182.713573090273
1415683_at 951.42755589514
1415684_at 163.500359765314
1415685_at 107.274993243814
1415686_at 322.025249047201
1415687_a_at 2398.63845113612
1415688_at 772.943954959077
1415689_s_at 156.033284220209

Total number of rows: 45101

Table truncated, full table size 1246 Kbytes.

Supplementary file Size Download File type/resource
GSM60604.CEL.gz 5.7 Mb (ftp)(http) CEL
Raw data provided as supplementary file

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