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Status |
Public on Dec 07, 2009 |
Title |
Mouse_-il-3 replicate 2 p53-/- time 6hrs |
Sample type |
RNA |
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Source name |
FDM, -il-3
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Organism |
Mus musculus |
Characteristics |
cell type: myeloid progenitor cells cell line: p53-/-
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Extracted molecule |
total RNA |
Extraction protocol |
Mouse total RNA was quality ascertained using the Agilent Bioanalyser 2100 using the NanoChip protocol.
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Label |
biotin
|
Label protocol |
A total of 500ng was labelled using the Ambion Total Prep RNA amplification kit (Cat. No. – IL1791). The quantity of labelled product was ascertained using the Agilent Bioanalyser 2100 using the NanoChip protocol.
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Hybridization protocol |
A total of 1.5ug of labelled cRNA was then prepared for hybridisation to the MouseWG-6_V1_1_R3 by preparing a probe cocktail (cRNA @ 0.05ug/ul) that includes GEX-HYB Hybridisation Buffer (supplied with the beadchip). A total hybridisation volume of 30ul is prepared for each sample and 30ul loaded into a single array on the MouseWG-6_V1_1_R3. A total of 6 different labelled samples can be loaded into 6 individual arrays per beadchip. The chip is hybridised at 58C for 16 hours in an oven with a rocking platform. After hybridisation, the chip is washed using the appropriate protocols as outlined in the illumina manual.
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Scan protocol |
Upon completion of the washing, the chips are then coupled with Cy3 and scanned in the illumina BeadArray Reader. The scanner operating software, BeadStudio, converts the signal on the array into a TXT file for analysis.
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Description |
IL-3 study.
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Data processing |
The Bioconductor/R package lumi was used to perform variance stabilizing transformation and quantile normalization
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Submission date |
Oct 27, 2009 |
Last update date |
Nov 06, 2009 |
Contact name |
Anissa Jabbour |
E-mail(s) |
jabbour@wehi.edu.au
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Organization name |
Walter and Eliza Hall Institute
|
Department |
Cell Signalling and Cell Death
|
Lab |
Cell Biology Laboratory
|
Street address |
1G Royal Parade
|
City |
Parkville |
State/province |
Victoria |
ZIP/Postal code |
3052 |
Country |
Australia |
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Platform ID |
GPL6105 |
Series (1) |
GSE18770 |
Myeloid progenitor cells lacking p53 exhibit delayed upregulation of Puma, prolonged survival after cytokine deprivation |
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