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Sample GSM443837 Query DataSets for GSM443837
Status Public on Apr 19, 2011
Title 5619
Sample type RNA
 
Source name Cardiac progenitor cells
Organism Mus musculus
Characteristics cell type: myogenic cells (C2C12)
Extracted molecule total RNA
Extraction protocol RNA, RNeasy Mini Ki, Qiagen
Label Cy3
Label protocol 1µg of sample was spiked with a set of 10 positive control transcripts (Agilent Technologies), converted to double stranded cDNA in a reverse transcription reaction, amplified and labeled with Cy3 in an in vitro transcription reaction according to the manufacturer’s protocol (Agilent Technologies).
 
Hybridization protocol For Cy3 28 pmol incorporated dye was fragmented and resuspended in 55ul hybridization buffer HI-RPM (Agilent Technologies). The arrays were hybridized in microarray hybridization chambers (Agilent Technologies) overnight at 65ºC, rpm=10 for 17 hours.
Scan protocol After washing the slides were scanned with a DNA microarray scanner (Agilent Technologies) and images were processed with the Feature Extraction Software version 9.5 (Agilent Technologies).
Description Cardiac progenitor cells: derived from aorta, atrium and ventricle biopsies of wild-type (WT) mice and dystrophic mice (beta-sarcoglycan null). WT cardiac progenitors differentiate into beating cardiomyocytes, Beta sarcoglycan O progenitor cells differentiate into skeletal muscle fibers.
Data processing The Agilent processed signal values (i.e., feature gProcessedSignal from Agilent Feature Extraction v9.5.3.1) were used for the data analysis. Intensities were base 2 log-transformed and in case of multiple probes for the same Agilent ID, log-intensities were averaged. Control probes were removed prior to analysis.
 
Submission date Aug 24, 2009
Last update date Apr 20, 2011
Contact name Rekin's Janky
E-mail(s) Nucleomics.Bioinformatics@vib.be
Organization name VIB
Department Nucleomics Core
Street address Herestraat 49 Box 816
City Leuven
ZIP/Postal code B-3000
Country Belgium
 
Platform ID GPL7202
Series (1)
GSE17774 Gene profile of dystrophic cardiac progenitor cells

Data table header descriptions
ID_REF
VALUE normalized, log2-transformed signal intensity

Data table
ID_REF VALUE
A_51_P100021 4.25195157118499
A_51_P100034 11.626949666216
A_51_P100052 1.46305897388802
A_51_P100063 5.48909619874713
A_51_P100084 4.66603961015467
A_51_P100099 10.1755557879554
A_51_P100155 13.4060096383124
A_51_P100174 10.6925265836106
A_51_P100181 10.3274908931665
A_51_P100218 1.35029129473939
A_51_P100227 13.4368377464104
A_51_P100238 1.81491704904585
A_51_P100246 12.7311431388048
A_51_P100289 13.7771463896595
A_51_P100298 5.52449156753424
A_51_P100309 1.5833842912313
A_51_P100327 5.13440414053948
A_51_P100347 1.54175469049381
A_51_P100379 5.93181304502284
A_51_P100428 1.69871988877201

Total number of rows: 41174

Table truncated, full table size 1199 Kbytes.




Supplementary file Size Download File type/resource
GSM443837_5619.txt.gz 7.9 Mb (ftp)(http) TXT
Processed data included within Sample table

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