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Sample GSM172478 Query DataSets for GSM172478
Status Public on Jun 30, 2007
Title Embryo heart at E13.5, KO-1
Sample type RNA
 
Source name KO Mouse embryo hearts between E12.5-15.5
Organism Mus musculus
Characteristics Genotype: wildtype vs Myc-null
Cardiac myocyte proliferation and apoptosis comparison, effect of wildtype vs Myc-null hearts
Treatment protocol Embryos and tissues were taken from various stages under the dissecting scope. Selected hearts were rinsed with ice cool PBS and placed in the Trizol solution (GibcoBRL).
Extracted molecule total RNA
Extraction protocol Cardiac myocyte RNA was isolated using TRIZOL®Reagent (Sigma). RNA quality was assessed using an Agilent 2100 bioanalyzer.
Label Biotin Streptavidin-Cy3
Label protocol Biotinylated cRNA were synthesized by the Ambion total prep RNA amplification kit. cDNA was quantified and normalized to 77 ng/mcL
 
Hybridization protocol Total RNA (100 ng) was hybridized to the Sentrix® MouseRef-8 Expression BeadChip (Illumina, Inc. San Diego, CA) that contains probes for ~20,000 transcripts
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
Data processing The data were analyzed with Illumina Inc. BeadStudio version 1.5.0.34 and normalized by rank invariant method.
 
Submission date Feb 28, 2007
Last update date Jun 29, 2007
Contact name Weiguang Zhong
E-mail(s) wzhong@ucla.edu
Organization name UCLA
Department Cardiology
Street address 675 Charles Young Drive
City Los Angeles
State/province CA
ZIP/Postal code 90095
Country USA
 
Platform ID GPL4865
Series (1)
GSE7162 Expression data from Mus musculus Myc-null heart at E13.5

Data table header descriptions
ID_REF Target ID
VALUE rank invariant normalized average intensity signal across probe specific beads
DETECTION P-VALUE 1-p-value computed from the background model characterizing the chance that the target sequence signal was distinguishable from the negative control

Data table
ID_REF VALUE DETECTION P-VALUE
18S_rRNA_X00686_523-S 701.501 1
GI_11079652-S 8.30032 0.7708082
GI_21070949-S 6146.46 1
GI_21746160-S 2914.11 1
GI_23346428-S 19.8266 0.92279855
GI_23592945-S 20514.2 1
GI_23956057-S -12.8682 0.11580217
GI_28476905-S 13519.9 1
GI_31981441-S -19.3146 0.026537998
GI_31982339-S 38.3836 0.98552473
GI_46909570-S 2035.61 1
GI_6671508-S 7775.82 1
GI_6678306-S 0.63517 0.55971049
GI_6679936-S 24529.4 1
GI_6753645-S 13.2383 0.8504222
GI_7106304-S 11.7231 0.83112183
IGHA_J00475$V00785_Ig_heavy_constant_alpha_135-S 56.0492 0.99758745
IGHD_V00786_Ig_heavy_constant_delta_68-S 25.3681 0.95778046
IGHG2C_J00479_Ig_heavy_constant_gamma_2C_715-S -0.86647 0.49577805
IGHM_V00818_Ig_heavy_constant_mu_941-S -18.6388 0.034981906

Total number of rows: 24048

Table truncated, full table size 818 Kbytes.




Supplementary file Size Download File type/resource
GSM172478.txt.gz 375.5 Kb (ftp)(http) TXT
Processed data included within Sample table

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