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Sample GSM783871 Query DataSets for GSM783871
Status Public on Dec 31, 2014
Title control_CD34Neg_4
Sample type RNA
 
Source name CD34Neg
Organism Mus musculus
Characteristics strain: C57Bl/6
cell type: CD34Neg
genotype/variation: control (IFNgamma-/-)
Treatment protocol For analysis of hematopoietic progenitors by flow cytometry, bone marrow cells were stained with antibodies against lineage markers, CD34, Flt3, Sca-1, c-Kit, Cd16/32 (93), IL-7Rα (A7R34), CD48 (HM-48-1), CD150 (TCF15-12F12.2, Biolegend) and CD27 (LG.7F9) and identified as: LT-HSC (Lin-c-Kit+Sca-1+CD34-Flt3-), ST-HSC (Lin-c-Kit+Sca-1+CD34-Flt3-)
Extracted molecule total RNA
Extraction protocol Rneasy Plus micro kit (Qiagen)
Label biotin
Label protocol RNA was amplified with Ambion MessageAmp kit for Illumina arrays and biotinylated during a second round of amplification with the same kit
 
Hybridization protocol Standard Illumina protocol
Scan protocol Standard Illumina protocol
Description FACS pools of CD34 negative cells obtained from two mice
Data processing Beadarray v1.3 probe summarization; vsn normalization
Matrix non-normalized: Two columns per sample. First column contains intensity values; second column contains detection p-value, is low when intensity value is above background threshold. Matrix normalized: Two columns per sample. First column contains vsn normalized intensity values; second column contains same detection p-values as non-normalized data
 
Submission date Aug 22, 2011
Last update date Dec 31, 2014
Contact name Peter A.C. 't Hoen
E-mail(s) p.a.c.hoen@lumc.nl
Phone +31 71 5269421
Fax +31 71 5268285
URL http://www.humgen.nl
Organization name Leiden University Medical Center
Department Center for Human and Clinical Genetics
Street address PO Box 9600
City Leiden
ZIP/Postal code 2300 RC
Country Netherlands
 
Platform ID GPL6885
Series (1)
GSE31574 Genome-wide expression analysis of self renewing hematopoietic stem cells (HSC) in control and CD70TG mice.

Data table header descriptions
ID_REF
VALUE vsn normalized signal intensity
Detection.Pval

Data table
ID_REF VALUE Detection.Pval
ILMN_2896528 12.478 0
ILMN_2721178 8.45 0
ILMN_3033922 7.883 0
ILMN_3092673 12.652 0
ILMN_2816356 6.366 0.155496
ILMN_2808939 10.645 0
ILMN_2634564 8.894 0
ILMN_2737647 6.416 0.1126005
ILMN_2734484 8.682 0
ILMN_2952292 8.413 0
ILMN_2699078 6.101 0.5509383
ILMN_1213681 8.39 0
ILMN_2735413 5.787 0.9932976
ILMN_2735415 6.258 0.2747989
ILMN_2891688 10.201 0
ILMN_2637698 12.364 0
ILMN_2674228 8.219 0
ILMN_2601546 6.217 0.3351206
ILMN_1230831 5.95 0.8565683
ILMN_2848071 6.261 0.2707775

Total number of rows: 25697

Table truncated, full table size 641 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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