NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1138051 Query DataSets for GSM1138051
Status Public on May 22, 2014
Title MLL#2pn
Sample type genomic
 
Source name Leukemic cells obtained from bone marrow or blood at remission
Organism Homo sapiens
Characteristics disease: leukemia (remission)
cell type: t-AML
Treatment protocol None
Growth protocol DNA was extracted from cryopreserved mononuclear cell preparations of diagnostic bone marrow or peripheral blood from AML cases with t(9;11)
Extracted molecule genomic DNA
Extraction protocol AllPrep DNA/RNA Mini Kit (Qiagen)
Label biotin
Label protocol 250 nanograms of genomic DNA were digested to completion with NspI or StyI, ligated to adapaters and amplified by PCR. 200-270 micrograms of pooled amplified DNA were fragmented and end-labeled with a biotinylated nucleotide according to the Genome-Wide Human SNP Nsp/Sty 6.0 User Guide 702504 Rev 3, 2008, Affymetrix)
 
Hybridization protocol 200-270 micrograms of amplified and biotinylated DNA were hybridized for 16-18 hr at 50C on a GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
Description DNA extracted from tumor cells obtained at remission
Data processing Genotyping Console/birdseed-v2
 
Submission date May 08, 2013
Last update date May 22, 2014
Contact name Michael Kuehn
E-mail(s) michael.kuehn@uniklinik-ulm.de
Organization name University Hospital of Ulm
Street address Albert-Einstein-Allee 23
City Ulm
ZIP/Postal code 89081
Country Germany
 
Platform ID GPL6801
Series (1)
GSE46745 Genome-wide Genotyping of Acute Myeloid Leukemia with Translocation t(9;11)(p22;q23) Reveals Novel Recurrent Genomic Alterations

Data table header descriptions
ID_REF PROBE SET NAME
VALUE CALL
CONFIDENCE
FORCED CALL
SIGNAL A
SIGNAL B

Data table
ID_REF VALUE CONFIDENCE FORCED CALL SIGNAL A SIGNAL B
SNP_A-2131660 BB 0.003173 BB 672.230835 2069.764160
SNP_A-1967418 BB 0.005828 BB 315.355621 642.828918
SNP_A-1969580 BB 0.003319 BB 1297.016113 3632.608154
SNP_A-4263484 BB 0.005175 BB 473.916656 1640.956543
SNP_A-1978185 AA 0.001681 AA 1813.034912 511.456879
SNP_A-4264431 AA 0.004454 AA 1769.247437 452.998566
SNP_A-1980898 AB 0.002488 AB 853.855957 751.719238
SNP_A-1983139 AA 0.008348 AA 1285.056274 420.372681
SNP_A-4265735 AB 0.001295 AB 725.801514 716.122437
SNP_A-1995832 AB 0.011974 AB 1713.857544 969.259277
SNP_A-1995893 AB 0.001636 AB 1641.387939 2189.157227
SNP_A-1997689 BB 0.002298 BB 846.097534 2836.434326
SNP_A-1997709 AA 0.001947 AA 1562.516357 368.479218
SNP_A-1997896 AA 0.003598 AA 1725.899414 545.016663
SNP_A-1997922 AB 0.008986 AB 568.599609 496.099091
SNP_A-2000230 AA 0.005263 AA 1946.256104 1565.974121
SNP_A-2000332 AB 0.001934 AB 2508.291016 2401.941162
SNP_A-2000337 AA 0.005965 AA 924.076233 365.046356
SNP_A-2000342 AA 0.007530 AA 2548.477051 790.088196
SNP_A-4268173 AB 0.003025 AB 853.855957 825.968750

Total number of rows: 909622

Table truncated, full table size 46143 Kbytes.




Supplementary file Size Download File type/resource
GSM1138051_MLL2pn.CEL.gz 25.8 Mb (ftp)(http) CEL
GSM1138051_MLL2pn.chp.gz 12.9 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap