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Sample GSM4047102 Query DataSets for GSM4047102
Status Public on May 05, 2021
Title Muscle_Old SX_biological rep4
Sample type RNA
 
Source name vastus lateralis, old SX
Organism Homo sapiens
Characteristics gender: male
age (y): 73.3
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 48.315437
2315554 145.75388
2315633 164.94354
2315674 125.35275
2315739 117.91208
2315894 204.06401
2315918 54.385277
2315951 175.60861
2316069 151.22865
2316218 336.5555
2316245 70.892
2316379 209.01044
2316558 413.75427
2316605 119.4547
2316746 204.02777
2316905 99.18033
2316953 114.715034
2317246 95.78858
2317317 115.50093
2317434 536.05145

Total number of rows: 15940

Table truncated, full table size 274 Kbytes.




Supplementary file Size Download File type/resource
GSM4047102_20100622_17X_3473_HuEx-1_0-st-v2_.CEL.gz 22.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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