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Sample GSM686639 Query DataSets for GSM686639
Status Public on May 19, 2011
Title CD34(+)KSL multipotent progenitors, biological replicate 2
Sample type RNA
Source name CD34(+)KSL multipotent progenitors
Organism Mus musculus
Characteristics cell type: CD34(+)KSL multipotent progenitors
genetic background: C57BL/6
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using an ISOGEN reagent (Nippon Gene).
Label Biotin
Label protocol Biotinylated cRNA were prepared from the purified total RNA equivalent to 3,000 cells with a Two-Cycle cDNA Synthesis Kit and 3'-Amplification Reagents for IVT Labeling (Affymetrix).
Hybridization protocol Following fragmentation, 10 μg of cRNA were hybridized for 16 hr at 45˚C on GeneChip Mouse Genome 430 2.0 Array (Affymetrix). Arrays were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using Affymetrix GeneChip Scanner 3000 7G.
Description CD34(+)KSL multipotent progenitors purified by cell sorting
Data processing The data were analyzed with GeneChip Operating Softwere version 1.4 (GCOS1.4, Affymetrix) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Submission date Mar 07, 2011
Last update date May 19, 2011
Contact name Hitoshi Ichikawa
Phone +81-3-3542-2511
Fax +81-3-3248-1631
Organization name National Cancer Center Research Institute
Lab Genetics Division
Street address 5-1-1 Tsukiji, Chuo-ku
City Tokyo
ZIP/Postal code 104-0045
Country Japan
Platform ID GPL1261
Series (2)
GSE27785 Gene expression profile of mouse hematopoietic stem cells
GSE27787 Hematopoietic cells and stem cells

Data table header descriptions
VALUE MAS 5.0 signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)

Data table
AFFX-BioB-5_at 107.734 P 0.000195116
AFFX-BioB-M_at 143.701 P 4.42873e-05
AFFX-BioB-3_at 94.1004 P 5.16732e-05
AFFX-BioC-5_at 339.481 P 5.16732e-05
AFFX-BioC-3_at 511.352 P 5.16732e-05
AFFX-BioDn-5_at 867.706 P 4.42873e-05
AFFX-BioDn-3_at 1313.02 P 4.42873e-05
AFFX-CreX-5_at 4620.48 P 5.16732e-05
AFFX-CreX-3_at 5292.42 P 4.42873e-05
AFFX-DapX-5_at 2.74717 A 0.631562
AFFX-DapX-M_at 8.72199 A 0.156732
AFFX-DapX-3_at 4.54602 A 0.239063
AFFX-LysX-5_at 2.99788 A 0.382599
AFFX-LysX-M_at 1.7659 A 0.814869
AFFX-LysX-3_at 0.807716 A 0.60308
AFFX-PheX-5_at 0.496027 A 0.937071
AFFX-PheX-M_at 3.61157 A 0.425962
AFFX-PheX-3_at 2.01392 A 0.804734
AFFX-ThrX-5_at 1.73985 A 0.783496
AFFX-ThrX-M_at 6.955 A 0.216524

Total number of rows: 45101

Table truncated, full table size 1377 Kbytes.

Supplementary file Size Download File type/resource
GSM686639_CD34_+_KSL_4-S.CHP.gz 246.4 Kb (ftp)(http) CHP
GSM686639_CD34_+_KSL_4.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data provided as supplementary file

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