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Status |
Public on Dec 09, 2005 |
Title |
JEACFU-Bi-II, chip RAE230B |
Sample type |
RNA |
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Source name |
Primary culture; single cell colonies, Calvaria
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Organism |
Rattus norvegicus |
Characteristics |
Strain: Wistar Gender: Both male and female fetuses Karyotype: Diploid Defining markers: Gene expression of osteocalcin, adipcin, L32
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Treatment protocol |
Assays to confirm viability: Colony type was categorized by osteoblast and adipocyte specific gene expression
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Growth protocol |
Growth medium: a-MEM Media supplements: Ascorbic Acid, BGP, Dex, fetal bovine serum Culture conditions: 37C, 5% CO2, for 4 weeks
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Extracted molecule |
total RNA |
Extraction protocol |
RNA prep method: RNeasy Amplification method: Affymetrix small sample target labelling (V. I) Cell purification method: Single cell sorting by flow cytometry
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Label |
Biotin
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Description |
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.scgp.ca:8080/StemBase/). The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Jane Aubin (jane.aubin@utoronto.ca; 6230 Medical Building; 1 King's College Circle) for analysis. Stembase Experiment ID: E179 Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=179 SCGP Sample ID: S222 SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=179#SAMPLE_180 Short description: RNA was isolated from colonies expressing both the osteocalcin and the adipsin markers. Num cells for RNA prep: 100-300 (single colonies) Sample volume: 17 ul (first strand cDNA)
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Data processing |
Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06
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Submission date |
Dec 07, 2005 |
Last update date |
Jan 19, 2006 |
Organization |
Ottawa Hospital Research Institute |
Phone |
(613) 737-8899 -73255
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Department |
Cellular and Molecular Medicine
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Lab |
Ottawa Bioinformatics Core Facility
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Street address |
501 Smyth Rd.
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City |
Ottawa |
State/province |
ON |
ZIP/Postal code |
K1H 8L6 |
Country |
Canada |
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Platform ID |
GPL342 |
Series (1) |
GSE3775 |
Global Gene Expression Profiles of Single-Cell Derived Fetal Rat Calvaria Cell Colonies with Adipocyte and Bone Markers |
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Data table header descriptions |
ID_REF |
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VALUE |
'signal' a measure of the abundance of a transcript. Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06. |
ABS_CALL |
the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC) |
DETECTION P-VALUE |
'detection p-value', p-value that indicates the significance level of the detection call |
Data table |
ID_REF |
VALUE |
ABS_CALL |
DETECTION P-VALUE |
AFFX-BioB-5_at |
6284.35 |
P |
0.00227496 |
AFFX-BioB-M_at |
10376.1 |
P |
8.14279e-05 |
AFFX-BioB-3_at |
7305.47 |
P |
0.000445901 |
AFFX-BioC-5_at |
19168.3 |
P |
7.00668e-05 |
AFFX-BioC-3_at |
11356.4 |
P |
7.00668e-05 |
AFFX-BioDn-5_at |
16746.9 |
P |
0.000169227 |
AFFX-BioDn-3_at |
97401.6 |
P |
5.16732e-05 |
AFFX-CreX-5_at |
169480 |
P |
4.42873e-05 |
AFFX-CreX-3_at |
277575 |
P |
4.42873e-05 |
AFFX-DapX-5_at |
488.587 |
A |
0.262827 |
AFFX-DapX-M_at |
781.103 |
M |
0.0629293 |
AFFX-DapX-3_at |
487.992 |
A |
0.737173 |
AFFX-LysX-5_at |
81.3136 |
A |
0.737173 |
AFFX-LysX-M_at |
105.223 |
A |
0.904333 |
AFFX-LysX-3_at |
928.556 |
P |
0.0200219 |
AFFX-PheX-5_at |
37.3738 |
A |
0.979978 |
AFFX-PheX-M_at |
54.4354 |
A |
0.843268 |
AFFX-PheX-3_at |
328.654 |
A |
0.631562 |
AFFX-ThrX-5_at |
129.559 |
A |
0.686277 |
AFFX-ThrX-M_at |
241.635 |
A |
0.617401 |
Total number of rows: 15333
Table truncated, full table size 452 Kbytes.
Supplementary file |
Size |
Download |
File type/resource |
GSM86610.CEL.gz |
2.3 Mb |
(ftp)(http) |
CEL |
GSM86610.EXP.gz |
505 b |
(ftp)(http) |
EXP |
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