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Sample GSM2224976 Query DataSets for GSM2224976
Status Public on Jun 21, 2017
Title FDC Sarcoma5
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 0.692273418
1367453_st 1.170064692
1367454_st 0.946778482
1367455_st 1.669464998
1367456_st 1.906472225
1367457_st 1.685818614
1367458_st 1.16601575
1367459_st 1.77428242
1367460_st 0.543893006
1367461_st 1.478508671
1367462_st 1.81410674
1367463_st 1.585841669
1367464_st 2.244396025
1367465_st 0.19029175
1367466_st 1.890233376
1367467_st 1.675720571
1367468_st 2.649282697
1367469_st 0.759566692
1367470_st 1.525097689
1367471_st 0.869751172

Total number of rows: 20706

Table truncated, full table size 579 Kbytes.




Supplementary file Size Download File type/resource
GSM2224976_FDC_Sarcoma5_miRNA-2_0_.CEL.gz 663.3 Kb (ftp)(http) CEL
Processed data included within Sample table

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