NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4331078 Query DataSets for GSM4331078
Status Public on Jan 01, 2021
Title myoblasts-control repl 01
Sample type RNA
 
Source name mock-treated myoblasts
Organism Mus musculus
Characteristics tissue: skeletal muscle
cell type: satellite cells
Treatment protocol Myoblasts were stimulated with 100ng/ml BMP4 protein, or 500ng/ml GREM1 protein in DMEM medium supplemented with 2% Horse serum.
Growth protocol Satellite cells-derived myoblasts were cultured on collagen-coated dishes in Ham's-F10 nutrient mix supplemented with 20% FBS and 2.5ng/ul basic FGF
Extracted molecule total RNA
Extraction protocol RNA extraction was performed by using the TRIzol Reagent (Life Technologies) according to manufacturer's instructions. 50 ng of total RNA was reverse transcribed following the Ovation PicoSL WTA System (Nugen). The resulting double strand cDNA was used for amplification based on SPIA technology. After purification according to Nugen protocol, 5ug of single strand DNA was used for generation of Sens Target DNA using Ovation Exon Module kit (Nugen).
Label biotin
Label protocol 2.5μg of Sens Target DNA were fragmented and biotin labelled using Encore Biotin Module kit (Nugen).
 
Hybridization protocol After control of fragmentation using Bioanalyzer 2100, cDNA was hybridized to GeneChip® Mouse Gene 2.0 ST (Affymetrix) at 45°C for 17 hours. After overnight hybridization, chips are washed on the fluidic station FS450 following specific protocols (Affymetrix)
Scan protocol GeneChips were scanned using the affymetrix GCS3000 7G system
Data processing The scanned images are then analyzed with Expression Console software (Affymetrix) to obtain raw data and metrics for Quality Controls. The observations of some of these metrics and the study of the distribution of raw data show no outlier experiment. Affymetrix probe-set data were normalized using the robust multi-array average (RMA) method using R. Analysis done with custom CDF: mogene20st_Mm_ENTREZG_v19_9_2
 
Submission date Feb 21, 2020
Last update date Jan 02, 2021
Contact name Fabien Le Grand
E-mail(s) fabien.le-grand@cnrs.fr
Phone 0033144412436
Organization name Institut Neuromyogene
Department Melis
Street address 8 avenue Rockefeller
City Lyon
ZIP/Postal code 69008
Country France
 
Platform ID GPL20710
Series (1)
GSE145694 Transcriptomic analysis of BMP4/GREM1 stimulation on primary myoblasts

Data table header descriptions
ID_REF
VALUE RMA

Data table
ID_REF VALUE
100009600 4.598336282
100009609 2.306319499
100009614 3.437827191
100009664 3.138649534
100012 3.312850984
100017 6.582700518
100019 8.185026351
100033459 2.516415608
100034251 4.574506583
100034675 3.156310285
100034729 2.962755597
100034739 3.630179739
100034748 4.759807568
100036518 2.742054269
100036520 4.15244956
100036521 3.896535178
100036523 6.213209749
100036537 9.431373526
100036569 2.167757073
100036768 4.684926584

Total number of rows: 24973

Table truncated, full table size 454 Kbytes.




Supplementary file Size Download File type/resource
GSM4331078_C1_MoGene-2_0-st_.CEL.gz 8.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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