NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1328179 Query DataSets for GSM1328179
Status Public on Feb 15, 2014
Title Gene expression of myoblasts 8 days after myogenic stimuli
Sample type RNA
 
Source name myoblasts
Organism Homo sapiens
Characteristics gender: male
age: 7
ethnicity: Caucasian
Treatment protocol Differentiation to myotubes were stimulated by switching the culture medium to DMEM-F12 (Thermo scientific) with 2% horse serum (Sigma Aldrich) when cells were reachd about 50% confluent. Medium was replaced every other day, and changed to SkGM-2 medium at day 8. SkGM-2 medium was replaced every other day until day 15. Cells were collected on day 1, day 3, day 8 and day 15.
Growth protocol Myoblasts were cultured with SkGM-2 medium (Lonza) at 37C 5% CO2.
Extracted molecule total RNA
Extraction protocol ISOGEN (Nippon gene) extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the Affymetrix Gene Profiling Regent User Guide (Affymetrix) from 200 ng of total RNA.
 
Hybridization protocol Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the GeneChip scanner 3000 7G.
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
 
Submission date Feb 14, 2014
Last update date Feb 15, 2014
Contact name Kohei Miyata
E-mail(s) md100029@cis.fukuoka-u.ac.jp
Phone +81928011011
Organization name Fukuoka University
Department Obstetrics and Gynecology
Street address 7-45-1 Nanakuma, Jounannku
City Fukuoka-city
State/province Fukuoka
ZIP/Postal code 8140131
Country Japan
 
Platform ID GPL570
Series (1)
GSE55034 DNA methylation and gene expression analysis during myogenic differentiation

Data table header descriptions
ID_REF
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 1169.36 P 8.14279e-05
AFFX-BioB-M_at 1689.02 P 4.42873e-05
AFFX-BioB-3_at 965.213 P 4.42873e-05
AFFX-BioC-5_at 2706.36 P 4.42873e-05
AFFX-BioC-3_at 3457.55 P 4.42873e-05
AFFX-BioDn-5_at 8335.83 P 4.42873e-05
AFFX-BioDn-3_at 13793.5 P 5.16732e-05
AFFX-CreX-5_at 36402.3 P 5.16732e-05
AFFX-CreX-3_at 40149.1 P 4.42873e-05
AFFX-DapX-5_at 1273.67 P 5.16732e-05
AFFX-DapX-M_at 2938.94 P 0.000169227
AFFX-DapX-3_at 5428.73 P 4.42873e-05
AFFX-LysX-5_at 315.611 P 7.00668e-05
AFFX-LysX-M_at 401.986 P 6.02111e-05
AFFX-LysX-3_at 806.385 P 4.42873e-05
AFFX-PheX-5_at 397.6 P 4.42873e-05
AFFX-PheX-M_at 457.557 P 0.000109401
AFFX-PheX-3_at 389.428 P 8.14279e-05
AFFX-ThrX-5_at 107.054 P 0.00179591
AFFX-ThrX-M_at 386.391 P 0.000126798

Total number of rows: 54675

Table truncated, full table size 1637 Kbytes.




Supplementary file Size Download File type/resource
GSM1328179_day8_HG-U133_Plus_2_.CEL.gz 4.1 Mb (ftp)(http) CEL
GSM1328179_day8_HG-U133_Plus_2_.mas5.CHP.gz 495.5 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