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Sample GSM2143874 Query DataSets for GSM2143874
Status Public on Nov 22, 2016
Title g3_11
Sample type RNA
 
Source name Liver
Organism Mus musculus
Characteristics strain: C57BL/6
developmental stage: P0
genotype: Runx f/+, VC
tissue: HPC
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 HPCs
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 GPL21163
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_51_P399985 11.8971
A_55_P2508138 4.78503
A_55_P2805880 4.77611
A_55_P2419483 4.76655
A_55_P2739683 10.1342
A_51_P211903 9.23222
A_66_P121325 16.0638
A_51_P226429 12.2614
A_55_P2841743 4.72897
A_55_P2737159 8.34514
A_55_P2728466 9.28445
A_55_P2101526 10.2774
A_52_P1132414 7.45834
A_66_P135936 15.5953
A_55_P2805396 13.388
A_55_P2717104 10.467
A_55_P2909714 13.8505
A_55_P2744310 13.7488
A_52_P83363 6.2027
A_55_P2091691 15.127

Total number of rows: 56605

Table truncated, full table size 1186 Kbytes.




Supplementary file Size Download File type/resource
GSM2143874_US82600140_257480910460_S01_GE1_107_Sep09_red_only_2_2.txt.gz 13.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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