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Sample GSM856354 Query DataSets for GSM856354
Status Public on Nov 27, 2012
Title 347486
Sample type RNA
 
Source name ALL, total RNA
Organism Homo sapiens
Characteristics pathology: ALL
cytogenetics: Neg
immunophenotype: Early-Pre-B
site (pb: peripheral blood; BM: bone marrow): PB
age: 49
Sex: M
white blood count (wbc, 10^9/l):  7.1
%blasts: 80%
imatinib: neg
overall_survival(days):  1757
code_os (dead_1):  0
hyperdiploid: neg
cd25(pos >=5%, neg <5%): 0
Extracted molecule total RNA
Extraction protocol Total RNA extracted with Qiagen's RNeasy Plus Mini kit from Qiagen (Valencia, CA), per manufacturer's instructions.
Label Cy5/635
Label protocol Random priming with 7-mers pre-labeled with either Cy3 or Cy5 according to manufacturer's instructions using the NimbleGen Dual-Color DNA Labeling Kit (cat # 06370381001)
 
Hybridization protocol See Roche NimbleGen website for the detailed manufacturers protocol.
Scan protocol Scanning was performed using NimbleGen MS 200 scanner
Description 12832
Data processing RMA normalization using the RMA algorithm in NimbleScan 2.5 software (Roche NimbleGen, Inc).
 
Submission date Jan 04, 2012
Last update date Nov 27, 2012
Contact name Huimin Geng
E-mail(s) huimin.geng@ucsf.edu
Organization name UCSF
Department Department of Laboratory Medicine
Street address 513 Parnassus Ave., MSB S-1480
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
 
Platform ID GPL15088
Series (2)
GSE34861 Integrative Epigenomic Analysis Identifies Biomarkers and Therapeutic Targets in Adult B-Acute Lymphoblastic Leukemia [mRNA profiling]
GSE34941 Integrative Epigenomic Analysis Identifies Biomarkers and Therapeutic Targets in Adult B-Acute Lymphoblastic Leukemia

Data table header descriptions
ID_REF
VALUE log2 transformed intensity values

Data table
ID_REF VALUE
HSAP0406S00000001 13.8913002
HSAP0406S00000002 13.28460026
HSAP0406S00000003 12.05360031
HSAP0406S00000004 13.23029995
HSAP0406S00000005 10.79769993
HSAP0406S00000006 9.274200439
HSAP0406S00000007 8.361200333
HSAP0406S00000008 7.793700218
HSAP0406S00000009 5.645999908
HSAP0406S00000010 9.925999641
HSAP0406S00000011 7.632199764
HSAP0406S00000012 11.49790001
HSAP0406S00000013 8.497699738
HSAP0406S00000014 7.701499939
HSAP0406S00000015 8.391699791
HSAP0406S00000016 10.77929974
HSAP0406S00000017 6.495100021
HSAP0406S00000018 8.784700394
HSAP0406S00000019 8.656499863
HSAP0406S00000020 5.718999863

Total number of rows: 36846

Table truncated, full table size 1075 Kbytes.




Supplementary file Size Download File type/resource
GSM856354_347486_GE_635.pair.gz 6.1 Mb (ftp)(http) PAIR
Processed data included within Sample table

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