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Series GSE44739 Query DataSets for GSE44739
Status Public on Mar 01, 2013
Title Affymetrix SNP array data for xenografted transient abnormal myelopoiesis samples
Organism Homo sapiens
Experiment type Genome variation profiling by SNP array
SNP genotyping by SNP array
Summary Transient abnormal myelopoiesis (TAM) is a clonal pre-leukemic disorder that progresses to myeloid leukemia of Down syndrome (ML-DS) through the accumulation of genetic alterations. To investigate the mechanism of leukemogenesis in this disorder, a xenograft model of TAM was established using NOD/Shi-scid, IL-2RĪ³null mice. In serial transplantations, engrafted TAM-derived cells showed the emergence of divergent subclones with another GATA1 mutation and various CNAs, including a 16q deletion and 1q gain, which are clinically associated with ML-DS. These results suggest that genetically heterogeneous subclones with varying leukemia-initiating potential already exist in the neonatal TAM phase, and ML-DS may develop from a pool of such minor clones through clonal selection.
 
Overall design Affymetrix SNP arrays were performed according to the manufacturer's directions on DNA extracted from murine bone marrow (hCD45 sorted) or human peripheral blood samples. Copy number analysis of Affymetrix 500K SNP arrays was performed for xenografted TAM samples of 3 patients. There are also 3 samples from TAM patients in remission, which were used as references for copy number inference.
 
Contributor(s) Sato-Otsubo A, Ogawa S, Yoshida K, Okuno Y, Saida S, Watanabe K
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Submission date Feb 28, 2013
Last update date May 17, 2017
Contact name Aiko Sato-Otsubo
Organization name University of Tokyo
Street address 7-3-1, Hongo, Bunkyo-ku
City Tokyo
ZIP/Postal code 113-8655
Country Japan
 
Platforms (1)
GPL3718 [Mapping250K_Nsp] Affymetrix Mapping 250K Nsp SNP Array
Samples (42)
GSM1089824 TAM#1 patient sample in complete remission phase rep1
GSM1089825 TAM#1 patient diagnostic sample
GSM1089826 TAM#1 3rd mouse from m1-1
Relations
BioProject PRJNA191153

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE44739_RAW.tar 1.1 Gb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file

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