NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1677124 Query DataSets for GSM1677124
Status Public on Jun 12, 2017
Title WT untreated replicate 1
Sample type RNA
 
Source name Mouse embryonic fibroblasts
Organism Mus musculus
Characteristics cell type: Mouse embryonic fibroblasts
genotype: WT
treatment: untreated
strain: C57BL/6
Treatment protocol Mouse embryonic fibroblasts were treated at 90% confluency with recombinant tumor necrosis factor (10 ng/ml)
Growth protocol Mouse embryonic fibroblasts were cultured in complete DMEM media with 10% BCS and passaged by trypsinizing every third day.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using RNeasy Kit (QIAGEN) and on column DNase digestion was performed according to manufacturer protocol. Quality control was performed using Agilent Bioanalyzer.
Label Cy3
Label protocol Biotinylated cRNA were prepared with TargetAmpTM- Nano labelling Kit for illumina Expression Beadchip
 
Hybridization protocol illumina standard direct hybridization protocol
Scan protocol By using illumina Bead Array Reader version 3.7.9.27572
Description SAMPLE 1
Data processing The raw data was extracted from illumina's Genome studio software and the same used to check the quality of data. The data were normalized using quantile normalisation method.
 
Submission date May 06, 2015
Last update date Jun 19, 2017
Contact name Soumen Basak
Organization name National Institute of Immunology
Department Infection and immunity
Lab Systems Immunology Laboratory
Street address Aruna Asaf Ali Marg
City New Delhi
State/province Delhi
ZIP/Postal code 110067
Country India
 
Platform ID GPL6885
Series (2)
GSE68615 An autoregulatory RelB:p50 NF-κB pathway perpetuates pro-survival TNF response in multiple myeloma
GSE99980 TNF-induced gene-expressions in Nfkb2-/- MEFs and its derivatives

Data table header descriptions
ID_REF
VALUE quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 1741.282 0
ILMN_2721178 260.3038 0
ILMN_3033922 1262.988 0
ILMN_3092673 8691.957 0
ILMN_2816356 98.23598 0.005012531
ILMN_2808939 1628.267 0
ILMN_2634564 708.3597 0
ILMN_2737647 29.88686 0.09022556
ILMN_2734484 232.8188 0
ILMN_2952292 225.7676 0
ILMN_2699078 -12.56284 0.7030075
ILMN_1213681 645.8847 0
ILMN_2735413 16.94974 0.1666667
ILMN_2735415 18.28807 0.1578947
ILMN_2891688 548.7592 0
ILMN_2637698 2354.729 0
ILMN_2674228 718.9561 0
ILMN_2601546 28.40084 0.09649123
ILMN_1230831 19.9615 0.1503759
ILMN_2848071 49.0843 0.03007519

Total number of rows: 25697

Table truncated, full table size 741 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap