NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM721025 Query DataSets for GSM721025
Status Public on May 29, 2012
Title Runx1-/VE-cadherin+/Flk1+, expression
Sample type RNA
 
Source name FACS-sorted day 6 differentiated ES cells, Runx1-/VE-cadherin+/Flk1+
Organism Mus musculus
Characteristics cell line: Runx1(Venus/+) ES cell line
cell type: differentiated ES cells
days of differentiation: 6
cell subpopulation: Runx1-/VE-cadherin+/Flk1+
Treatment protocol No treatment beyond the normal growth protocol was used.
Growth protocol 1 x 10^5 undifferentiated ES cells were cultured on confluent OP9 cell layers in 10-cm dishes to induce differentiation. After 6 days of ES cell differentiation, cultured cells were harvested for FACS analysis and sorting.
Extracted molecule total RNA
Extraction protocol Extraction of total RNA was performed by using the QIAGEN RNeasy Micro kit according to the manufacturer's instructions.
Label biotin
Label protocol The 3'IVT Express Kit was used for biotin labeling according to the manufacturer's instructions (Affymetrix).
 
Hybridization protocol RNA was subsequently fragmented and hybridized to the GeneChip according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol The microarray image data were processed with the GeneChip Scanner 3000 (Affymetrix).
Description Gene expression data from FACs-sorted day 6 differentiated ES cells.

Runx1(Venus/+) ES cell line: The Venus gene was placed in the P2-5'UTR under the control of the Runx1 proximal promoter P2. Parental ES cells are CCE ES cells.
Data processing The data were processed using MAS5.0 (Affymetrix GCOS Ver.1.3).
 
Submission date May 06, 2011
Last update date May 29, 2012
Contact name Anagha M Joshi
E-mail(s) aj379@cam.ac.uk
Phone +44 01223 336822
Organization name University of cambridge
Department Dept. of haematology, CIMR
Lab Dr. Gottgens
Street address Wellcome trust/MRC building, Hills road
City Cambridge
ZIP/Postal code CB20XY
Country United Kingdom
 
Platform ID GPL1261
Series (2)
GSE29112 The transcriptional program controlled by Runx1 during early hematopoietic development (expression data)
GSE29515 The transcriptional program controlled by Runx1 during early hematopoietic development

Data table header descriptions
ID_REF
VALUE MAS5.0 signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
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 291.848 P 7.00668e-05
AFFX-BioB-M_at 461.56 P 4.42873e-05
AFFX-BioB-3_at 297.792 P 4.42873e-05
AFFX-BioC-5_at 829.691 P 5.16732e-05
AFFX-BioC-3_at 1153.33 P 4.42873e-05
AFFX-BioDn-5_at 2842.48 P 4.42873e-05
AFFX-BioDn-3_at 4531.78 P 4.42873e-05
AFFX-CreX-5_at 10979.4 P 5.16732e-05
AFFX-CreX-3_at 11147.7 P 4.42873e-05
AFFX-DapX-5_at 791.232 P 4.42873e-05
AFFX-DapX-M_at 1778.91 P 0.00010954
AFFX-DapX-3_at 2030.56 P 4.42873e-05
AFFX-LysX-5_at 127.763 P 4.42873e-05
AFFX-LysX-M_at 168.769 P 0.000126798
AFFX-LysX-3_at 314.036 P 4.42873e-05
AFFX-PheX-5_at 153.475 P 5.16732e-05
AFFX-PheX-M_at 200.092 P 4.42873e-05
AFFX-PheX-3_at 270.025 P 5.16732e-05
AFFX-ThrX-5_at 145.694 P 0.000195116
AFFX-ThrX-M_at 239.936 P 5.16732e-05

Total number of rows: 45101

Table truncated, full table size 1385 Kbytes.




Supplementary file Size Download File type/resource
GSM721025.CEL.gz 3.7 Mb (ftp)(http) CEL
GSM721025.CHP.gz 245.9 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.