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Sample GSM2143783 Query DataSets for GSM2143783
Status Public on Nov 22, 2016
Title HSC_WT_E14.5_16886
Sample type RNA
 
Source name Liver
Organism Mus musculus
Characteristics strain: C57BL/6
developmental stage: E14.5
genotype: wildtype
tissue: HSC
Treatment protocol No treatments. Cells were harvested directly from mice by flow cytometry
Growth protocol HSCs and HPCs harvested directly from mouse by flow cytometry
Extracted molecule total RNA
Extraction protocol RNA was prepared using the Qiagen RNAeasy micro plus columns
Label Cy5
Label protocol RNA samples were amplified using SIGMA WTA2 RNA amplification system. Amplified 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 May 05, 2016
Last update date Nov 22, 2016
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 GPL10787
Series (1)
GSE81153 Fetal and neonatal hematopoietic progenitors are functionally and transcriptionally resistant to Flt3-ITD mutations.

Data table header descriptions
ID_REF
VALUE Quantile normalized signal intensity in log2 scale based on the rProcessedSignal field

Data table
ID_REF VALUE
A_55_P2051983 7.07729
A_52_P169082 10.0267
A_30_P01028193 7.447
A_52_P237997 8.90639
A_51_P414243 13.1822
A_55_P2136348 6.9412
A_51_P108228 5.59544
A_30_P01033363 9.60053
A_55_P2049737 5.98651
A_30_P01024440 12.0182
A_30_P01025554 13.4043
A_30_P01031558 12.1843
A_30_P01030675 4.64261
A_51_P328014 13.0571
A_30_P01019108 10.934
A_55_P2056220 9.17649
A_55_P1985764 13.9413
A_52_P108321 11.9011
A_55_P2018002 7.58245
A_52_P123354 12.4478

Total number of rows: 55681

Table truncated, full table size 1191 Kbytes.




Supplementary file Size Download File type/resource
GSM2143783_US82600140_252800520968_S01_GE1_107_Sep09_red_only_2_3.txt.gz 12.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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