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Sample GSM2224982 Query DataSets for GSM2224982
Status Public on Jun 21, 2017
Title FDC Sarcoma11
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 1.902839825
1367453_st 1.069791968
1367454_st 2.627913307
1367455_st 2.082962868
1367456_st 1.859615998
1367457_st 2.482179766
1367458_st 1.467119391
1367459_st 1.352568784
1367460_st 2.281559391
1367461_st 2.280553146
1367462_st 1.142596287
1367463_st 2.506098148
1367464_st 2.317995816
1367465_st 2.453634179
1367466_st 1.781287826
1367467_st 2.123436866
1367468_st 3.077598381
1367469_st 0.464460498
1367470_st 1.824961452
1367471_st 1.17273627

Total number of rows: 20706

Table truncated, full table size 579 Kbytes.




Supplementary file Size Download File type/resource
GSM2224982_FDC_Sarcoma11_miRNA-2_0_.CEL.gz 644.1 Kb (ftp)(http) CEL
Processed data included within Sample table

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