GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM315708 Query DataSets for GSM315708
Status Public on Jan 26, 2009
Title MIFS_case_control
Sample type RNA
Source name Case control
Organism Homo sapiens
Characteristics RNA from fresh frozen tumor biopsy
Biomaterial provider Dept of Clinical Genetics, Lund University Hospital, Sweden
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from frozen tumor biopsies using Trizol reagent (Invitrogen, Carlsbad, CA, USA) and RNeasy (Qiagen, Valencia, CA, USA) according to the manufacturers' instructions.
RNA quality and concentration were measured using an Agilent 2100 bioanalyzer and Nanodrop ND-1000, respectively. cDNA was generated with the GeneChip® Whole Transcript (WT) cDNA Synthesis and Amplification Kit (Affymetrix) using 300 ng total RNA. Amplified cDNA was fragmented and end labeled using the GeneChip® WT Terminal Labelling Kit (Affymetrix). Subsequently, the fragmented and biotinylated cDNA was hybridized to the GeneChip® Human Gene 1.0 ST Arrays (Affymetrix). The arrays were washed and stained on a GeneChip® Fluidics Station 450 (Affymetrix) according to the manufacturer’s recommendations.
Label biotin
Label protocol GeneChip® WT Terminal Labelling Kit (Affymetrix Inc, Santa Clara, CA, USA)
Hybridization protocol Arrays were hybridized and washed according to the manufacturer's specifications (Affymetrix Inc., Santa Clara, CA, USA)
Scan protocol Arrays were scanned in a GeneChip® Scanner 3000 (Affymetrix Inc., Santa Clara, CA, USA)
Description Genome-wide gene expression profiling of MIFS using the Affymetrix GeneChip® Human Gene 1.0 ST Arrays (Affymetrix Inc., Santa Clara, CA, USA)
Data processing Image analysis was performed using GeneChip® Operating Software (GCOS, Affymetrix). Expression data was normalized, background corrected and summarized using the RMA algorithm implemented in the Affymetrix Expression Console™ version 1.0 software.
Submission date Aug 27, 2008
Last update date Jan 26, 2009
Contact name Karolin H Nord
Organization name Lund University
Department Dept of Clinical Genetics
Street address BMC C13
City Lund
ZIP/Postal code SE-22184
Country Sweden
Platform ID GPL6244
Series (2)
GSE12592 Gene expression analysis of myxoinflammatory fibroblastic sarcoma, and morphologically similar lesions
GSE12595 Two genetic pathways in myxoinflammatory fibroblastic sarcoma and morphologically similar lesions

Data table header descriptions
VALUE RMA-normalized intensities

Data table
7892501 4.058407
7892502 6.155309
7892503 4.10926
7892504 8.734847
7892505 2.558509
7892506 3.158921
7892507 5.238163
7892508 6.07359
7892509 9.949883
7892510 5.652189
7892511 3.549104
7892512 6.793599
7892513 3.196499
7892514 10.06737
7892515 8.772449
7892516 6.078424
7892517 6.855187
7892518 1.754306
7892519 4.591054
7892520 9.522002

Total number of rows: 33297

Table truncated, full table size 549 Kbytes.

Supplementary file Size Download File type/resource
GSM315708.CEL.gz 4.1 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap