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Sample GSM3302272 Query DataSets for GSM3302272
Status Public on Jul 24, 2018
Title G084_F11_308_4081_PROM
Sample type RNA
 
Source name Muscle biopsy from vastus lateralis, isolated from subject 4081, before or without resistance-type exercise training
Organism Homo sapiens
Characteristics tissue: vastus lateralis
Sex: M
subjectid: 4081
age (yrs): 84
height (m): 1.75
weight (kg): 87.00
bmi (kg/m2): 28.50
supplement: placebo / no supplement
received training: no
group: Frail (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 3.770798233
10_at 2.067393975
100_at 5.170850709
1000_at 3.962064394
10000_at 6.152487149
100009676_at 5.350807526
10001_at 7.599523956
10002_at 3.68475007
10003_at 3.14351413
100033413_at 7.177587237
100033414_at 6.593823257
100033416_at 7.238126659
100033418_at 8.594557537
100033420_at 9.247500395
100033422_at 2.186748326
100033423_at 5.565909848
100033424_at 4.969147105
100033425_at 5.255768495
100033426_at 10.97598868
100033427_at 11.87349266

Total number of rows: 19654

Table truncated, full table size 399 Kbytes.




Supplementary file Size Download File type/resource
GSM3302272_G084_F11_308_4081_PROM.CEL.gz 4.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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