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Sample GSM1192524 Query DataSets for GSM1192524
Status Public on Jul 17, 2024
Title UC6
Sample type RNA
 
Source name Homo Sapiens
Organism Homo sapiens
Characteristics sample type: Bladder Cancer Cell Line
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA) and the RNAprotect reagent (Qiagen) and DNA was removed by on-column DNase digestion with the RNase-Free DNase set (Qiagen). RNA quality and concentration was determined by analysis with an Agilent 2100 bioanalyzer at the Harvard-Partners Center for Genetics and Genomics (Harvard Medical School, Cambridge, MA USA).
Label Cy3
Label protocol Cy3 9mer Wobble TriLink, Biotechnologies, 50 O.D., N46-0001-50
 
Hybridization protocol MAUI Hybridization System, BioMicro Systems, 02-A002-03
Scan protocol DNA Microarray Scanner, Agilent, G2565B
Data processing Raw values were trimmed to exclude 4295 random probes. Raw values were log2-transformed, and samples were median centered. The median-centered log2 values were then quantile-normalized in R (normalize.quantiles).
 
Submission date Jul 18, 2013
Last update date Jul 17, 2024
Contact name Bogdan Czerniak
E-mail(s) bczernia@mdanderson.org
Organization name UT MD Anderson Cancer Center
Department Pathology
Street address 1515 Holcombe
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
 
Platform ID GPL17471
Series (1)
GSE49024 Expression analysis of RB1 region in bladder cancer cases

Data table header descriptions
ID_REF
VALUE quantile-normalized, median-centered, log2 transformed raw intensity values.

Data table
ID_REF VALUE
CHR13FS045100002 -0.505258165
CHR13FS045100011 0.397313997
CHR13FS045100019 -0.367106228
CHR13FS045100027 -0.291206809
CHR13FS045100038 -0.179164334
CHR13FS045100047 0.216972355
CHR13FS045100054 0.158436823
CHR13FS045100065 0.286626516
CHR13FS045100074 0.085529248
CHR13FS045100083 0.084471153
CHR13FS045100091 0.095669972
CHR13FS045100099 -0.202288739
CHR13FS045100108 0.399235534
CHR13FS045100117 0.045845994
CHR13FS045100126 0.111796626
CHR13FS045100135 -0.369993762
CHR13FS045100145 0.339116658
CHR13FS045100189 0.072958846
CHR13FS045100198 0.148775961
CHR13FS045100206 -0.18870822

Total number of rows: 385012

Table truncated, full table size 11048 Kbytes.




Supplementary file Size Download File type/resource
GSM1192524_10111902.csv.gz 5.3 Mb (ftp)(http) CSV
GSM1192524_10111902_532.pair.gz 5.7 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

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