NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM3302281 Query DataSets for GSM3302281
Status Public on Jul 24, 2018
Title G084_G09_175_COL_PRE_STOUD
Sample type RNA
 
Source name Muscle biopsy from vastus lateralis, isolated from subject COL, before or without resistance-type exercise training
Organism Homo sapiens
Characteristics tissue: vastus lateralis
Sex: M
subjectid: COL
age (yrs): 67
height (m): 1.79
weight (kg): 99.70
bmi (kg/m2): 31.10
supplement: protein
received training: yes
group: Healthy older (baseline)
Treatment protocol Training for both frail and healthy older subjects and consisted of progressive full‐body resistance‐type exercise training. However, the frail older group had training sessions twice per week, whereas the healthy older group trained three times per week. In addition, subjects took a protein or control drink for the duration of the study. The healthy older group received a 15 g portion of milk protein or control supplement at breakfast. The frail older group received a similar drink containing 15 g supplement drink (milk protein or control) at breakfast and lunch.
Growth protocol Baseline transcriptome profiles were measured in muscle biopsies collected from 53 young, 73 healthy older subjects, and 61 frail older subjects. Follow‐up samples from these frail older subjects (31 samples) and healthy older subjects (41 samples) were collected after 6 months of progressive resistance‐type exercise training.
Extracted molecule total RNA
Extraction protocol Muscle samples were obtained with a 5 mm Bergstrom muscle biopsy needle from the Musculus vastus lateralis, after local anaesthesia of the skin and fascia. Samples were freed from any visible blood and non‐muscle tissue and immediately frozen in liquid nitrogen and then stored at −80°C. All samples were obtained in the morning, in an overnight fasted state, after at least 3 days of no heavy physical activity. Total RNA was isolated from the skeletal muscle tissue by using Trizol reagent (Invitrogen, Breda, Netherlands). Thereafter, RNA was purified using the Qiagen RNeasy Micro kit (Qiagen, Venlo, Netherlands), and RNA quality was checked using an Agilent 2100 bioanalyzer (Agilent Technologies, Amsterdam, Netherlands).
Label biotin
Label protocol One hundred nanogram of total RNA was labelled using Ambion WT expression kit (Applied Biosystems, Nieuwekerk a/d IJssel, The Netherlands).
 
Hybridization protocol Hybridization and washing of Affymetrix GeneChip Human Gene 1.1 ST arrays was carried out according to standard Affymetrix protocols (Affymetrix, Santa Clara, CA).
Scan protocol Arrays were scanned on an Affymetrix 3000 7G scanner according to standard protocol.
Data processing Expression estimates were calculated applying the robust microarray analysis (RMA) algorithm.
 
Submission date Jul 23, 2018
Last update date Jul 24, 2018
Contact name Roland Hangelbroek
E-mail(s) roland.hangelbroek@wur.nl
Organization name Wageningen University
Department Division of Human Nutrition
Lab Nutrition, Metabolism and Genomics
Street address Stippeneng 4
City Wageningen
ZIP/Postal code 6708WE
Country Netherlands
 
Platform ID GPL20880
Series (1)
GSE117525 Expression of protocadherin gamma in skeletal muscle tissue is associated with age and muscle weakness

Data table header descriptions
ID_REF
VALUE RMA signal (log2 scale)

Data table
ID_REF VALUE
1_at 4.064878286
10_at 2.474641388
100_at 5.503130149
1000_at 4.168542172
10000_at 6.418680163
100009676_at 5.741625963
10001_at 7.313772073
10002_at 3.459938418
10003_at 3.305277347
100033413_at 7.212931177
100033414_at 6.818712903
100033416_at 7.458514182
100033418_at 8.446689364
100033420_at 9.082461203
100033422_at 2.195088361
100033423_at 5.41220443
100033424_at 5.190115013
100033425_at 5.379814046
100033426_at 11.0124042
100033427_at 11.81433461

Total number of rows: 19654

Table truncated, full table size 400 Kbytes.




Supplementary file Size Download File type/resource
GSM3302281_G084_G09_175_COL_PRE_STOUD.CEL.gz 4.3 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap