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Sample GSM577142 Query DataSets for GSM577142
Status Public on Sep 21, 2010
Title MEP_induced_rep2
Sample type RNA
 
Source name MEP cells isolated from E13.5 palatal shelves, induced
Organism Mus musculus
Characteristics strain: CBA;C57BL6 N2
developmental stage: embryo
age: E13.5
tissue: palatal shelf
cell type: mouse embryonic palate (MEP) primary cells
treatment: induction with pre-clustered ephrin-B1
Treatment protocol Forward signaling was induced by treatment with 2 ug/ml of ephrin-B1-Fc pre-clustered with an anti-human antibody.
Growth protocol MEP cells were isolated and grown in DMEM + 10%FBS, and passaged to P1 before induction of signaling.
Extracted molecule total RNA
Extraction protocol QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays.
 
Hybridization protocol Standard Illumina hybridization protocol.
Scan protocol Standard Illumina scanning protocol.
Description 1905531070_E
Induced with 2 ug/ml pre-clustered ephrin-B1-Fc for 60 minutes.
Data processing Data was normalized using cubic spline in Illumina Genome Studio v1.6.0 software; no background subtraction was used.
 
Submission date Aug 10, 2010
Last update date Sep 21, 2010
Contact name Jeffrey Ohmann Bush
E-mail(s) jeffrey.bush@mssm.edu, johmannbush@gmail.com
Organization name Mount Sinai School of Medicine
Department Developmental and Regenerative Biology
Lab Soriano
Street address One Gustave Levy Place, Box 1020
City New York
State/province NY
ZIP/Postal code 10029
Country USA
 
Platform ID GPL6105
Series (1)
GSE23539 Identification of immediate early transcriptional targets of ephrin-B1 forward signaling

Data table header descriptions
ID_REF
VALUE Normalized average signal value
Detection Pval Detection p-value

Data table
ID_REF VALUE Detection Pval
ILMN_2735294 -3.2 0.51903
ILMN_2417611 2.3 0.31503
ILMN_2545897 96.1 0.00312
ILMN_1238136 0.8 0.35745
ILMN_1248788 102.6 0.00312
ILMN_2707227 24 0.04928
ILMN_2721178 529.1 0
ILMN_1227723 638.4 0
ILMN_2458840 -4 0.55646
ILMN_2729028 243.9 0
ILMN_2602282 15.5 0.09794
ILMN_2624326 237.6 0
ILMN_1230777 3469.9 0
ILMN_2730714 5465.6 0
ILMN_1246069 4499.9 0
ILMN_2524361 21 0.06176
ILMN_1243193 2006.3 0
ILMN_1232042 -2.4 0.47411
ILMN_2543689 3259 0
ILMN_1233188 252.1 0

Total number of rows: 46632

Table truncated, full table size 1133 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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