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Sample GSM1510119 Query DataSets for GSM1510119
Status Public on Sep 22, 2015
Title G_Spl1
Sample type RNA
 
Source name G-CSF mobilized spleen HSCs
Organism Mus musculus
Characteristics tissue: spleen
treatment: G-CSF treated/mobilized
cell type: CD150+CD48-Lin-kit+Sca1+ HSCs
age: 8-10 week
Treatment protocol HSCs from control mice or after 7 days of G-CSF treatment or 14 days after Pten deletion
Growth protocol HSCs harvested directly from mouse by flow cytometry
Extracted molecule total RNA
Extraction protocol RNA was prepared using the nucelospin RNA isolation kit (Machery-Nagel)
Label Cy3
Label protocol cDNAs were chemically labeled with Kreatech ULS RNA labeling kit (Kreatech Diagnostics). Per reaction, 3ug of each RNA (+water=16ul) was mixed with Kreatech 10x labeling buffer (2ul) and Kreatech cy5/DY-ULS (2ul). The reactions were incubated at 85C for 15 minutes in the dark and placed on ice for 3 minutes. Labeled cDNA was purified with Qiagen PCR purification columns according to manufacturer’s protocol. cDNAs were quantitated on a Nanodrop spectrophotometer. Detailed protocol can be found at http://www.kreatech.com/fileadmin/user_upload/Documenten/PDF/12_man_EA-021-022-023__D0.6.pdf
 
Hybridization protocol The balanced aRNAs were suspended in Agilent 2X Gene Expression buffer (55ul), Agilent 10X Blocking agent (11ul), and Kreablock (6ul). The hybridization solutions were applied to Agilent Mouse v2 4x44K microarrays (G4846A-026655). Hybridization was carried out at 65C for 20 hours. Washing procedures were carried out according to Agilent gene expression protocols.
Scan protocol Slides were scanned on an Agilent C-class Microarray scanner to detect Cy5 fluorescence, according to manufacturer's specifications.
Description Gene expression in HSCs
Data processing Gridding and analysis of images was performed using Feature Extraction (v11.5.1.1, Agilent Technologies).
 
Submission date Sep 23, 2014
Last update date Sep 22, 2015
Contact name Jeffery Magee
E-mail(s) magee_j@kids.wustl.edu
Organization name Washington University School of Medicine
Department Internal Medicine - Cardiovascular Division
Street address 660 S Euclid Ave.
City St Louis
State/province Missouri
ZIP/Postal code 63110
Country USA
 
Platform ID GPL11202
Series (1)
GSE61655 Pten cell autonomously regulates HSC mobilization and function via G-CSF independent mechanisms

Data table header descriptions
ID_REF
VALUE Quantile normalized signal intensity in log2 scale

Data table
ID_REF VALUE
A_55_P1989846 9.83444
A_55_P1991598 11.1246
A_55_P2022211 12.0697
A_55_P1980764 12.3537
A_55_P1964375 9.33932
A_51_P128876 15.8048
A_55_P2121042 7.05495
A_52_P219230 5.98815
A_51_P207591 6.13157
A_55_P2131920 5.95408
A_55_P2404223 10.8103
A_55_P2101944 16.9166
A_52_P358860 9.99141
A_51_P119031 5.18065
A_51_P309854 5.34758
A_51_P343900 12.0577
A_51_P234359 9.22322
A_51_P487813 10.8143
A_52_P613977 12.0875
A_55_P1957209 5.78841

Total number of rows: 39429

Table truncated, full table size 827 Kbytes.




Supplementary file Size Download File type/resource
GSM1510119_252665511186_S01_GE1_107_Sep09_red_only_1_1.txt.gz 9.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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