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Sample GSM738971 Query DataSets for GSM738971
Status Public on Jul 19, 2011
Title Cervical tumor biopsy, P-349
Sample type RNA
 
Source name Cervical tumor
Organism Homo sapiens
Characteristics cohort (gse36562 study): Validation cohort
hypoxia score: Low
tissue: cervical tumor
figo stage: 2B
histology: Squamous cell carcinoma
cohort: Validation cohort
cohort (gse38964 study): Validation cohort
3p status: Not determined
Treatment protocol The samples were immediately snap-frozen in liquid nitrogen and stored at -80 C until used for analysis. Biopsies with more than 50% tumor cells in HE stained sections from the central part of the specimen were used further.
Growth protocol 1-4 tumor samples wer collected from each patient at the time of diagnosis
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent, followed by double precipitation with isopropanol and final precipitation with 5M lithium chloride. RNA from different biopsies of the same tumor was pooled. Quality control was performed with Agilent Bioanalyser.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Illumina protocol
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description P-349
Validation cohort
Data processing The data were normalised using quantile normalisation in BeadStudio 3.1.3.0
 
Submission date Jun 08, 2011
Last update date Apr 28, 2015
Contact name Heidi Lyng
E-mail(s) heidi.lyng@rr-research.no
Phone 4722781478
Organization name Oslo University Hospital
Department Department of Radiation Biology
Street address Montebello
City Oslo
ZIP/Postal code 0310
Country Norway
 
Platform ID GPL6884
Series (5)
GSE29817 Membranous Expression of Ectodomain Isoforms of the Epidermal Growth Factor Receptor (EGFR) Predicts Outcome after Chemoradiotherapy of Lymph Node Negative Cervical Cancer
GSE36562 Hypoxia-induced gene expression in chemoradioresistant cervical cancer revealed by dynamic contrast enhanced MRI
GSE38964 Identification of eight candidate target genes of the prognsotic 3p loss in cervical cancer by integrative genomic profiling
Relations
Affiliated with GSE68339

Data table header descriptions
ID_REF
VALUE Quantile-normalized signal
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1762337 37.56768994 0.4084322
ILMN_2055271 52.54793912 0.02766798
ILMN_1736007 34.03432189 0.7733861
ILMN_2383229 34.84126308 0.6877471
ILMN_1806310 36.34729843 0.544137
ILMN_1779670 35.99398742 0.5849802
ILMN_1653355 47.11593132 0.05006588
ILMN_1717783 31.61297648 0.9433465
ILMN_1705025 35.59618774 0.6258234
ILMN_1814316 34.14956044 0.7602108
ILMN_2359168 38.53215887 0.3254282
ILMN_1731507 35.60693057 0.6258234
ILMN_1787689 44.31058365 0.08695652
ILMN_1745607 860.678227 0
ILMN_2136495 281.6229843 0
ILMN_1668111 34.53451239 0.7233202
ILMN_2295559 33.22287742 0.8405797
ILMN_1735045 175.0112226 0
ILMN_1680754 42.99094119 0.115942
ILMN_2375184 44.27084597 0.08827405

Total number of rows: 48803

Table truncated, full table size 1596 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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