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Sample GSM4047087 Query DataSets for GSM4047087
Status Public on May 05, 2021
Title Muscle_Old_biological rep1
Sample type RNA
 
Source name vastus lateralis, old
Organism Homo sapiens
Characteristics gender: male
age (y): 74.1
disease state: healthy
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 52.801414
2315554 177.62033
2315633 151.09396
2315674 131.41661
2315739 141.45987
2315894 203.90575
2315918 49.791813
2315951 178.84314
2316069 154.2709
2316218 669.5971
2316245 70.835144
2316379 216.03893
2316558 439.3472
2316605 117.92737
2316746 205.82481
2316905 130.19716
2316953 125.19618
2317246 105.58455
2317317 117.51068
2317434 517.2346

Total number of rows: 15940

Table truncated, full table size 274 Kbytes.




Supplementary file Size Download File type/resource
GSM4047087_20100618_1A_3395_HuEx-1_0-st-v2_.CEL.gz 21.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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