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Sample GSM146742 Query DataSets for GSM146742
Status Public on Nov 12, 2007
Title Muscle non-HRT follow-up 1296
Sample type RNA
 
Source name vastus lateralis muscle, non-HRT user, follow-up
Organism Homo sapiens
Characteristics Gender: female
Age: 54 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_1296 individual, who belonged to non-hormone replacement therapy group (non-HRT) of "HRT and excercise"-intervention
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_C1296 average standard deviation associated with bead-to-bead variability
Avg_NBEADS_C1296 Average number of beads
Detection_C1296 p-value characterizing the chance that the target signal was distinguishable from the negative controls

Data table
ID_REF VALUE BEAD_STDEV_C1296 Avg_NBEADS_C1296 Detection_C1296
GI_10047089-S 12162.6125 449.3 38 1
GI_10047091-S 308.71875 16 37 0.97935484
GI_10047093-S 554.775 29 27 0.99354839
GI_10047099-S 175.246875 10.6 36 0.7716129
GI_10047103-S 706.1625 34.4 32 0.99612903
GI_10047105-S 153.796875 10.9 20 0.59483871
GI_10047121-S 152.640625 11.1 31 0.58451613
GI_10047123-S 194.95625 9.5 34 0.86451613
GI_10047133-A 164.453125 7.8 29 0.70322581
GI_10047133-I 172.16875 6.8 30 0.75225806
GI_10092578-S 165.071875 9.4 35 0.7083871
GI_10092585-S 231.63125 11.1 42 0.9316129
GI_10092596-S 258.18125 17.9 35 0.96
GI_10092600-S 670.4875 39.3 33 0.99483871
GI_10092602-S 164.796875 10.7 41 0.70709677
GI_10092603-S 181.121875 8.1 43 0.81290323
GI_10092611-A 168.7125 9.5 32 0.73032258
GI_10092616-S 195.1375 7.6 23 0.86709677
GI_10092618-S 3314.44375 140 50 1
GI_10092638-S 364.765625 22.1 30 0.98451613

Total number of rows: 24354

Table truncated, full table size 992 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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