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Sample GSM2831709 Query DataSets for GSM2831709
Status Public on May 27, 2019
Title C6Ba/F3-gp130-CIR2 stimulated with GFP-PFC (exon-level)
Sample type RNA
 
Source name C6Ba/F3-gp130-CIR2 stimulated with GFP-PFC
Organism Mus musculus
Characteristics cell line: Ba/F3-gp130
cell line vendor: Ba/F3 (DSMZ no.: ACC 300)
cell type: Hyper-Interleukin-6 dependent pro-B cellline
transfection: CIR-2
stimulation: GFP-PFC (50µl/ml)
Treatment protocol Ba/F3-gp130 cell lines were washed four times with sterile PBS and incubated in serum-free DMEM for 3 h. Equal numbers of cells (2 x 10^6) were stimulated for 1h at 37°C with 50µl GFP-PFC emulsion in 1ml serum free DMEM medium (1 h at 37°C). As a positive stimulation control Ba/F3-gp130 cells were incubated for 1h at 37°C with 100ng/ml Hyper IL-6 in serum free medium (Samples E2, E4, E6)
Growth protocol Ba/F3 cell lines were cultured in DMEM with 1% PenStrep and 10%FCS with recombinant Hyper-IL-6 (10 ng/ml cell culture supernatant) in 10 cm cell culture plattes and were splitted in a ratio from 1:10000 to 1:5
Extracted molecule total RNA
Extraction protocol Total RNA extraction was made with RNeasy mini kit (Qiagen, Hilden, Germany) including DNAse digestion according to the manufacturer's instructions. RNA quality was evaluated using an Agilent 2100 Bioanalyzer and only high quality RNA (RIN > 8) was used for microarray analysis.
Label biotin
Label protocol 150 ng total RNAwas amplified using the Ambion WT Expression Kit and the WT Terminal Labeling Kit (Affymetrix, Freiburg, Germany).
 
Hybridization protocol Amplified cDNA was hybridized on Affymetrix Mouse Gene ST 1.0 arrays (Affymetrix)
Scan protocol Detection of probe intensities was performed using a GeneChip scanner 3000 7G (GDAS 1.4 package, Affymetrix).
Description RNA expression value derived from Expression Console software; core-exon analysis
Data processing The data were analyzed with Affymetrix Expression Console using default analysis settings for RNA analyses for gene default and exon default .CHP files.
 
Submission date Oct 26, 2017
Last update date May 27, 2019
Contact name Birgit Knebel
Organization name German Diabetes Center
Department Cinical Biochemistry and Pathobiochemistry
Street address Auf'm Hennekamp 65
City Duesseldorf
ZIP/Postal code 40225
Country Germany
 
Platform ID GPL10740
Series (1)
GSE106215 Tracking of Individual Cell Populations by 19F MRI using a "Cargo Internalization Receptor (CIR)" System
Relations
Alternative to GSM2831677 (gene-level analysis)

Data table header descriptions
ID_REF
VALUE RMA signal
DETECTION P-VALUE

Data table
ID_REF VALUE DETECTION P-VALUE
10338001 11.9935 0
10338002 8.11176 0.201134
10338003 10.5344 0
10338004 9.34905 9.13064e-14
10338005 3.40984 0.819811
10338006 3.71198 0.559315
10338007 4.39712 0.912802
10338008 5.79596 0.905568
10338009 9.06136 0.304099
10338010 3.49082 0.546076
10338011 7.68789 0.555425
10338012 3.54365 0.488961
10338013 3.22105 0.412959
10338014 3.30478 0.875334
10338015 3.26704 0.341961
10338016 9.11937 0.592768
10338017 13.5239 3.92184e-36
10338018 8.52677 0.631812
10338019 7.35667 0.426013
10338020 9.31462 0.918166

Total number of rows: 241576

Table truncated, full table size 6437 Kbytes.




Supplementary file Size Download File type/resource
GSM2831709_C6_BaF3_gp130_CIR2_cells.CEL.gz 4.6 Mb (ftp)(http) CEL
GSM2831709_C6_BaF3_gp130_CIR2_cells.exon_.rma-exon-default-dabg.chp.gz 2.2 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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