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Sample GSM3302376 Query DataSets for GSM3302376
Status Public on Jul 24, 2018
Title G086_A09_189_RIC_PRE_STOUD
Sample type RNA
 
Source name Muscle biopsy from vastus lateralis, isolated from subject RIC, before or without resistance-type exercise training
Organism Homo sapiens
Characteristics tissue: vastus lateralis
Sex: F
subjectid: RIC
age (yrs): 66
height (m): 1.71
weight (kg): 67.70
bmi (kg/m2): 23.30
supplement: placebo / no supplement
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 4.45812399
10_at 2.535265143
100_at 5.160236375
1000_at 3.884766866
10000_at 6.418785145
100009676_at 5.108725315
10001_at 7.307532949
10002_at 3.749025196
10003_at 2.970100325
100033413_at 7.134850723
100033414_at 6.912128368
100033416_at 7.21802967
100033418_at 8.250344276
100033420_at 9.051663962
100033422_at 2.024820616
100033423_at 5.303700453
100033424_at 4.080025167
100033425_at 4.943425721
100033426_at 11.09498382
100033427_at 12.00896094

Total number of rows: 19654

Table truncated, full table size 399 Kbytes.




Supplementary file Size Download File type/resource
GSM3302376_G086_A09_189_RIC_PRE_STOUD.CEL.gz 4.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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