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Sample GSM2224973 Query DataSets for GSM2224973
Status Public on Jun 21, 2017
Title FDC Sarcoma2
Sample type RNA
 
Source name FDC sarcoma (tissue of whole sections)
Organism Homo sapiens
Characteristics tissue: follicular dendritic cell (FDC) sarcomas
tissue/cell type: FDC sarcoma (tissue of whole sections)
molecule subtype: micro RNA
Treatment protocol no specific treatment was performed
Growth protocol none (primary cells were analyzed)
Extracted molecule total RNA
Extraction protocol miRNA was extracted with the miRNeasy FFPE Kit from Qiagen
Label biotin
Label protocol miRNA was labeled with the Affymetrix FlashTag Biotin HSR RNA Labeling Kit
 
Hybridization protocol GeneChip® miRNA 2.0 arrays (Affymetrix) were hybridized with 100ng labelled microRNA, Hybridisation time was 18 hours.
Scan protocol Affymetrix Gene ChIP Scanner 3000 7G
Data processing Statistical analysis was done with the statistical computing environment R. Additional software packages (affy, geneplotter, multtest, and vsn) were taken from the Bioconductor project. Microarray preprocessing: Probe level normalization was conducted using the variance stabilization method (vsn) from Huber et al..
probe group file: UnsupportedGeneChip® miRNA 2.0 Array CDF Files
meta-probeset file: miRNA 2.0 Annotations, Unsupported, CSV format from Affymetrix
 
Submission date Jul 04, 2016
Last update date Jun 21, 2017
Contact name Claudia Döring
E-mail(s) C.Doering@em.uni-frankfurt.de
Organization name Johann Wolfgang-Goethe University Frankfurt a.M.
Department Medical School, Institite of Pathology
Street address Theodor Stern Kai 7
City Frankfurt
ZIP/Postal code 60590
Country Germany
 
Platform ID GPL14613
Series (1)
GSE83994 miRNA expression profiling divides follicular dendritic cell sarcomas into two groups, related to fibroblasts and myopericytomas or Castleman's disease

Data table header descriptions
ID_REF
VALUE log2 vsn normalized gene level expression values from Bioconductor

Data table
ID_REF VALUE
1367452_st 0.953748682
1367453_st 1.026833773
1367454_st 0.341316504
1367455_st 1.134017001
1367456_st 2.1858707
1367457_st 1.86715816
1367458_st 1.822510115
1367459_st 2.246415304
1367460_st 1.358941351
1367461_st 1.845081619
1367462_st 2.085375476
1367463_st 2.040414664
1367464_st 1.00017149
1367465_st 1.247542252
1367466_st 1.455282675
1367467_st 1.693714015
1367468_st 2.269069565
1367469_st 1.508906731
1367470_st 2.07116545
1367471_st 1.57749804

Total number of rows: 20706

Table truncated, full table size 579 Kbytes.




Supplementary file Size Download File type/resource
GSM2224973_FDC_Sarcoma2_miRNA-2_0_.CEL.gz 641.0 Kb (ftp)(http) CEL
Processed data included within Sample table

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