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Sample GSM1942508 Query DataSets for GSM1942508
Status Public on Jun 15, 2016
Title D288_Obese
Sample type RNA
 
Source name uterine NK cell
Organism Homo sapiens
Characteristics gestational age in weeks: 7
cell type: uterine NK cell
bmi: BMI = 31.4
crp (ug/ml): hsCRP = 5.6
Treatment protocol Uterine decidual mucoa was collected after elective terminations of pregnancy from consenting women at BC Women's Hospital. Tissue natural killer cells were isolated via enzymatic digestion in collagenase and purified by density gradient centrifugation and immuno-magnetic bead purification using a NK cell enrichment cocktail (Stem Cell Technology).
Extracted molecule total RNA
Extraction protocol RNA was extracted using Ambion RNAqueous Total RNA Isolation columns, followed by Dnase I treatment in accordance with the prescribed protocol provided with the kit. Quality control was performed with an Agilent Bioanalyzer; only samples with RIN values >7 were used.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description Obese_sample9
Data processing Raw expression data were log transformed and quantile normalized using he limma library beadarray packages of the Bioconductor open-source project in the R statistical environment
 
Submission date Nov 17, 2015
Last update date Jun 15, 2016
Contact name Alexander G Beristain
Phone 604-875-3573
Organization name The University of British Columbia
Department Obstetrics & Gynecology
Lab Beristain lab
Street address 950 West 28th Ave
City Vancouver
State/province BC
ZIP/Postal code V5Z 4H4
Country Canada
 
Platform ID GPL10558
Series (1)
GSE75091 Genome-wide analysis of uterine natural killer cell gene expression from lean and obese women in early pregnancy

Data table header descriptions
ID_REF
VALUE quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1802380 7.10879671 0
ILMN_1893287 6.283306534 0.331151832
ILMN_3238331 6.283355759 0.331151832
ILMN_1736104 6.221893167 0.769633508
ILMN_1792389 8.401963189 0
ILMN_1854015 6.463931999 0
ILMN_3308818 6.325805164 0.116492147
ILMN_1740305 6.323512006 0.123036649
ILMN_3242405 6.481708805 0
ILMN_1665168 6.120239243 0.996073298
ILMN_2375156 6.39501818 0.009162304
ILMN_1705423 6.263095395 0.494764398
ILMN_1716072 6.289527841 0.285340314
ILMN_1697642 6.606696483 0
ILMN_3295558 6.339281748 0.07591623
ILMN_1788184 6.191025892 0.909685864
ILMN_1681845 7.83945584 0
ILMN_3228430 6.253751922 0.564136126
ILMN_1746923 6.312082748 0.171465969
ILMN_1690979 6.259350056 0.519633508

Total number of rows: 48107

Table truncated, full table size 1579 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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