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Sample GSM4047100 Query DataSets for GSM4047100
Status Public on May 05, 2021
Title Muscle_Old SX_biological rep2
Sample type RNA
 
Source name vastus lateralis, old SX
Organism Homo sapiens
Characteristics gender: male
age (y): 74.1
disease state: metabolic syndrome
tissue: vastus lateralis muscle
Growth protocol Vastus lateralis muscle biopsy from men
Extracted molecule total RNA
Extraction protocol Vastus lateralis biopsies were snap-frozen in liquid N2. RNA was isolated using a TissueRuptor and RNeasy Fibrous Tissue Mini Kit (Qiagen). Integrity of RNA was verified using an Agilent Bioanalyser with the RNA 6000 Nano labchip® kit (Agilent). Concentration and purity was determined with a Nanodrop ND-1000 spectrophotometer (Nanodrop Technologies). The depletion of the ribosomal fractions was processed using 2 µg of total RNA and magnetic beads from Ribominus Kit (Invitrogen).
Label biotin
Label protocol Biotinylated single stranded cDNA were prepared from 400 ng of depleted total RNA according to the Affymetrix WT protocol (Ambion WT Expression kit).
 
Hybridization protocol Following fragmentation and terminal labeling, 5.5 µg of single stranded cDNA were hybridized for 16 h at 45°C and 60 rpm on GeneChip® Human Exon 1.0 ST Array in the Affymetrix Oven. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 with Hybridization Wash and Stain Affymetrix kit.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
Data processing Data were generated with Affymetrix Expression Console v 1.2.1 software using robust multiarray average (RMA) algorithm. Affymetrix data files were processed using GeneSpring GX 14.9 13 (Agilent ).
 
Submission date Aug 26, 2019
Last update date May 05, 2021
Contact name Daniel Bechet
E-mail(s) daniel.bechet@inrae.fr
Phone 33473624178
Organization name INRA
Department UNH
Lab Proteostasis
Street address Theix
City Saint Genes Champanelle
ZIP/Postal code 63122
Country France
 
Platform ID GPL5175
Series (1)
GSE136344 Muscle transcriptomic profiling of chronological aging and metabolic syndrome in men

Data table header descriptions
ID_REF
VALUE Quantile normalized gene level expression values from GeneSpring

Data table
ID_REF VALUE
2315373 47.92244
2315554 193.52531
2315633 156.72784
2315674 143.28537
2315739 128.53358
2315894 210.21085
2315918 51.922333
2315951 187.30643
2316069 191.97708
2316218 244.22853
2316245 73.829056
2316379 237.17513
2316558 412.68243
2316605 129.54611
2316746 205.76906
2316905 106.56841
2316953 133.1298
2317246 115.43962
2317317 136.17407
2317434 538.9378

Total number of rows: 15940

Table truncated, full table size 274 Kbytes.




Supplementary file Size Download File type/resource
GSM4047100_20100618_4X_3400_HuEx-1_0-st-v2_.CEL.gz 21.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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