NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1892484 Query DataSets for GSM1892484
Status Public on Dec 31, 2018
Title BAL_SARC_3
Sample type RNA
 
Source name SARC_BAL cells
Organism Homo sapiens
Characteristics diagnosis: SARC
cohort: Freiburg
age (yrs): 36
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_3
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 4.201022074
7892502 5.894764391
7892503 6.999556851
7892504 10.12002824
7892505 4.196214569
7892506 6.522844422
7892507 5.438615325
7892508 7.309092418
7892509 11.31202545
7892510 4.865564363
7892511 5.841878016
7892512 7.735912757
7892513 4.965377377
7892514 11.01880873
7892515 10.3312616
7892516 4.777351585
7892517 7.772487825
7892518 4.194600515
7892519 5.224268797
7892520 10.26453366

Total number of rows: 257430

Table truncated, full table size 5002 Kbytes.




Supplementary file Size Download File type/resource
GSM1892484_HUGENE-1_0-ST-V1_SARC_3.CEL.gz 4.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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