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Sample GSM3302261 Query DataSets for GSM3302261
Status Public on Jul 24, 2018
Title G084_E11_307_4078_PROM
Sample type RNA
 
Source name Muscle biopsy from vastus lateralis, isolated from subject 4078, before or without resistance-type exercise training
Organism Homo sapiens
Characteristics tissue: vastus lateralis
Sex: M
subjectid: 4078
age (yrs): 73
height (m): 1.82
weight (kg): 78.80
bmi (kg/m2): 23.80
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 4.365808221
10_at 2.66231902
100_at 5.261563511
1000_at 3.615930161
10000_at 6.600813371
100009676_at 5.664909819
10001_at 7.37026515
10002_at 3.570719481
10003_at 3.282126531
100033413_at 6.851725795
100033414_at 6.290097515
100033416_at 6.941408313
100033418_at 8.131550888
100033420_at 8.976849231
100033422_at 2.027847546
100033423_at 5.135246358
100033424_at 4.844013493
100033425_at 4.97475561
100033426_at 10.74504457
100033427_at 11.67506019

Total number of rows: 19654

Table truncated, full table size 399 Kbytes.




Supplementary file Size Download File type/resource
GSM3302261_G084_E11_307_4078_PROM.CEL.gz 4.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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