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GEO accession:
Sample GSM379109
Query DataSets for GSM379109
Status
Public on Aug 01, 2009
Title
MDS.U3
Sample type
genomic
Source name
MDS primary specimens
Organism
Homo sapiens
Characteristics
disease: Myelodysplastic syndromes (MDS)
who classification: CMML2
Extracted molecule
genomic DNA
Extraction protocol
As per PUREGENE DNA extracting kit
Label
biotin
Label protocol
Affymetrix standard protocol
Hybridization protocol
Affymetrix standard protocol
Scan protocol
Affymetrix standard protocol
Description
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MDS.U3
Data processing
CNAG/AsCNAR 3.0
Submission date
Mar 11, 2009
Last update date
Apr 22, 2009
Contact name
Motohiro Kato
Organization name
University of Tokyo
Street address
7-3-1, Hongo, Bunkyo-ku
City
Tokyo
ZIP/Postal code
113-8655
Country
Japan
Platform ID
GPL2005
Series (1)
GSE15187
SNP chip data of MDS
Data table header descriptions
ID_REF
VALUE
log2ratio_AB
log2ratio_A
log2ratio_B
N_AB
N_A
N_B
Call_done
Call_reference
Data table
ID_REF
VALUE
log2ratio_A
log2ratio_B
N_AB
N_A
N_B
Call_done
Call_reference
SNP_A-1677174
-0.024175
0.507399
-0.860346
2
1
1
1
1
SNP_A-1678466
0.028635
0.531354
-0.356893
2
1
1
3
1
SNP_A-1676440
-0.462776
0.073142
-1.324917
2
1
1
1
2
SNP_A-1662392
0.346944
0.824182
-0.964222
3
1
1
3
1
SNP_A-1685736
-0.009266
0.725507
-0.941740
3
1
1
3
1
SNP_A-1681384
0.187828
0.615117
-0.620327
2
4
1
3
1
SNP_A-1642581
0.101812
0.534070
-1.726823
2
0
0
3
1
SNP_A-1669029
-0.052519
0.000000
0.000000
2
2
0
1
1
SNP_A-1718237
0.155066
0.366866
-1.509611
2
0
0
1
1
SNP_A-1748467
0.020493
0.358645
-1.337878
2
0
0
1
1
SNP_A-1705537
0.243484
0.717007
-1.746922
2
1
1
1
1
SNP_A-1683756
0.210432
0.239763
0.180493
2
1
1
2
2
SNP_A-1696782
-0.063891
0.260714
-1.356154
2
2
0
3
1
SNP_A-1673422
0.003776
0.000000
0.000000
2
4
1
3
1
SNP_A-1670878
-0.019519
0.000000
0.000000
2
0
0
3
1
SNP_A-1743511
-0.173401
0.000000
0.000000
2
1
1
3
1
SNP_A-1736635
0.002555
0.004546
0.000562
2
1
1
2
2
SNP_A-1666738
-0.113089
0.429569
-1.411100
2
3
1
3
1
SNP_A-1721407
0.100176
0.152916
0.045435
2
1
1
2
2
SNP_A-1686722
-0.063586
0.579940
-1.425536
2
2
0
1
1
Total number of rows:
58494
Table truncated, full table size
2992 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM379109.CEL.gz
14.3 Mb
(ftp)
(http)
CEL
GSM379109.CHP.gz
145.5 Kb
(ftp)
(http)
CHP
Processed data included within Sample table
Processed data provided as supplementary file
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