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Sample GSM146734 Query DataSets for GSM146734
Status Public on Nov 12, 2007
Title Muscle non-HRT follow-up 1302
Sample type RNA
 
Source name vastus lateralis muscle,non-HRT user,follow-up
Organism Homo sapiens
Characteristics Gender: female
Age: 57 at onset of intervention
menopausal status: early postmenopausal
Treatment protocol needle muscle biopsy, immediately frozen in liquid nitrogen after extrication from biobsy needle, stored at - 70 degC until RNA extraction
Extracted molecule total RNA
Extraction protocol Frozen muscle biopsy samples were homogenized in Trizol-reagent (Invitrogen Inc.) with aid of FastPrep FP120 -apparatus (MP Biomedicals). Manufacturer’s protocol was followed through the isolation procedure.
Label Cy3
Label protocol Illumina RNA amplification kit (Ambion Inc., #I1755) was used according to manufacturer’s instructions. Input amount: 500 ng of total RNA.
 
Hybridization protocol Employing protocols by Illumina Inc.; hybridization: 17 h at 55 degC
Scan protocol Using an Illumina BeadReader containin two lasers: 532 nm and 635 nm and performing with 0.8 microns resolution. The data was acquired by the BeadStudio Direct Hybridization V.1.5.0.34
Description This sample presents follow-up sample of ID_1302 individual, who belonged to non-hormone replacement therapy group (non-HRT) of "HRT and excercise"-interventionc
Data processing The raw data was acquired by the BeadStudio Direct Hybridization V.1.5.0.34 (Illumina inc) and quantile normalized with Inforsense KDE 3.1 (InforSense Inc.) software
 
Submission date Nov 22, 2006
Last update date Nov 12, 2007
Contact name Eija Pöllänen
E-mail(s) eija.pollanen@jyu.fi
Phone +358-14-2604531
Fax +358-14-2604600
Organization name University of Jyväskylä
Department Department of Health Sciences
Street address PO Box 35/Viveca
City Jyväskylä
ZIP/Postal code 40014
Country Finland
 
Platform ID GPL2700
Series (1)
GSE6348 Expression data of skeletal muscle from HRT users and non-users

Data table header descriptions
ID_REF
VALUE quantile normalized intensity value
BEAD_STDEV_C1302 average standard deviation associated with bead-to-bead variability
Avg_NBEADS_C1302 Average number of beads
Detection_C1302 p-value characterizing the chance that the target signal was distinguishable from the negative controls

Data table
ID_REF VALUE BEAD_STDEV_C1302 Avg_NBEADS_C1302 Detection_C1302
GI_10047089-S 16209.2125 494.9 36 1
GI_10047091-S 284.725 17 32 0.98064516
GI_10047093-S 616.278125 21.4 33 0.99225806
GI_10047099-S 252.8625 17.7 20 0.97032258
GI_10047103-S 784.88125 22.4 33 0.99612903
GI_10047105-S 172.590625 15.4 23 0.79483871
GI_10047121-S 115.478125 8 32 0.04903226
GI_10047123-S 212.93125 9.1 33 0.9316129
GI_10047133-A 133.5375 9.2 32 0.27483871
GI_10047133-I 161.028125 9.2 33 0.70709677
GI_10092578-S 127.26875 7.7 33 0.17935484
GI_10092585-S 292.734375 20.8 19 0.98322581
GI_10092596-S 219.49375 16 22 0.94193548
GI_10092600-S 616.165625 20.1 35 0.99225806
GI_10092602-S 178.03125 8.8 36 0.82709677
GI_10092603-S 199.8875 11.2 36 0.89548387
GI_10092611-A 194 11 39 0.88129032
GI_10092616-S 147.640625 11.5 25 0.53290323
GI_10092618-S 3703.6 104 33 1
GI_10092638-S 316.071875 10.7 32 0.98580645

Total number of rows: 24354

Table truncated, full table size 994 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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