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Sample GSM1892498 Query DataSets for GSM1892498
Status Public on Dec 31, 2018
Title BAL_SARC_17
Sample type RNA
 
Source name SARC_BAL cells
Organism Homo sapiens
Characteristics diagnosis: SARC
cohort: Freiburg
age (yrs): 81
gender (male=1): 0
cell type: bronchoalveolar lavage (BAL) cells
Extracted molecule total RNA
Extraction protocol Isolation protocol: BAL cells were obtained by bronchoscopy, immediately isolated and 1 ml of TRIzol was added to the cell pellet, which was then immediately snap frozen in -80 celsius.
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA
 
Hybridization protocol Following fragmentation, cRNA were hybridized on Affymetrix Whole-Transcript Human Gene 1.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using a CGS30007G scanner (serialnumber 54713600)
Description HUGENE-1_0-ST-V1 SARC_17
Data processing Raw CEL files were RMA normalized using the R/Bioconductor package oligo (V.1.32.0) with default settings. Gene expression data was normalized to the geometric mean of all samples using quantile normalization and expression levels were summarized.
 
Submission date Sep 24, 2015
Last update date Dec 31, 2018
Contact name Antje Prasse
Organization name Medical School Hannover
Department Pneumology
Lab Prasse OE6870
Street address Carl-Neubergstrasse 1
City Hannover
ZIP/Postal code 30625
Country Germany
 
Platform ID GPL10739
Series (2)
GSE70867 BAL cell gene expression is predictive of Mortality in Idiopathic Pulmonary Fibrosis and enriched for Genes of Airway Basal Cells
GSE73394 BAL cell gene expression is predictive of Mortality in Idiopathic Pulmonary Fibrosis and enriched for Genes of Airway Basal Cells (III)

Data table header descriptions
ID_REF
VALUE RMA singal intensity

Data table
ID_REF VALUE
7892501 4.518496107
7892502 6.327429769
7892503 4.70651582
7892504 9.840699725
7892505 4.408948224
7892506 5.597157136
7892507 5.833664609
7892508 6.796184466
7892509 11.59565339
7892510 5.926954951
7892511 5.308368977
7892512 7.410528332
7892513 5.364878407
7892514 11.52027128
7892515 9.856097011
7892516 4.555574635
7892517 6.679360076
7892518 4.122614773
7892519 5.526601777
7892520 9.641866082

Total number of rows: 257430

Table truncated, full table size 4998 Kbytes.




Supplementary file Size Download File type/resource
GSM1892498_HUGENE-1_0-ST-V1_SARC_17.CEL.gz 4.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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