NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4565483 Query DataSets for GSM4565483
Status Public on Aug 21, 2020
Title batch4_AS_C5_JHG-21
Sample type RNA
 
Source name lung tissue
Organism Homo sapiens
Characteristics patient: 7337
age: 53
disease state: COPD
tissue: transplanted lung tissue
Treatment protocol Not Applicable.
Growth protocol Not Applicable.
Extracted molecule total RNA
Extraction protocol “RNeasy Mini” tool kit from Qiagen was applied to extract the total RNA in this study
Label Biotin
Label protocol The fragmented cDNA is labeled by terminal deoxynucleotidyl transferase (TdT) using a proprietary DNA Labeling Reagent that is covalently linked to biotin 5.5μg of single-stranded cDNA is required for fragmentation and labeling.
 
Hybridization protocol GeneChip™ Hybridization, Wash, and Stain Kits were applied in this study.
Scan protocol GeneChip™ Scanner 3000 System was utilized to scan the arrays in this study.
Data processing The analysis tools, including robust multichip array (RMA) algorithm in “affy” (v1.36.1) package and the BrainArray v17 CDF in R (version v3.3.0), were applied to analyze the Microarray expression profile
After the above standard data processing, the normalized expression matrix was log2 transformed to get the final expression matrix
 
Submission date May 22, 2020
Last update date Aug 22, 2020
Contact name FENG XU
E-mail(s) feng.xu@hli.ubc.ca
Phone 6047818321
Organization name UBC
Department Department of Pathology and Lab Medicine
Lab Jim Hogg Lab
Street address Suite 110, 6309 Larkin Dr, 110
City VANCOUVER
State/province BC
ZIP/Postal code V6T 0C2
Country Canada
 
Platform ID GPL17556
Series (1)
GSE151052 The site and nature of terminal bronchiolar destruction in chronic obstructive pulmonary disease (COPD).

Data table header descriptions
ID_REF
VALUE RMA signal

Data table
ID_REF VALUE
100009676_at 6.648704538
10000_at 7.307212768
10001_at 7.009385094
10002_at 4.854665482
100033413_at 7.745810674
100033414_at 5.892094175
100033416_at 8.318852057
100033418_at 8.705867834
100033420_at 9.794407468
100033422_at 2.455829887
100033423_at 4.83350162
100033424_at 2.777208555
100033425_at 4.225955048
100033426_at 10.59662257
100033427_at 12.10189013
100033428_at 2.491700552
100033430_at 2.181751079
100033431_at 9.422027419
100033432_at 7.000175413
100033433_at 4.432217363

Total number of rows: 19718

Table truncated, full table size 401 Kbytes.




Supplementary file Size Download File type/resource
GSM4565483_batch4_AS_C5_JHG-21.CEL.gz 3.8 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.