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Sample GSM578 Query DataSets for GSM578
Status Public on Oct 11, 2001
Title GPBMC_CD34-1
Sample type RNA
 
Source name normal G-CSF mobilized peripheral blood CD34+ cells (>95% purity)
Organism Homo sapiens
Extracted molecule total RNA
 
Description Comparison of gene expression in CD34+ cells from bone marrow and G-CSF mobilized peripheral blood by high density oligonucleotide array analysis.
CD34 cells were isolated from granulocyte colony stimulating factor mobilized peripheral blood CD34 cells (GPBMC) by a combination of magnetic bead enrichment and flow cytometry. Total RNA from was isolated with Qiagen RNEasy columns, pooled with further samples and converted to biotin-labeled cRNA by standard Affymetrix protocols.
For analysis the sample was scaled to an arbitrary value of 1000 by overall hybridization intensity to allow comparison of multiple samples.
Chip hybridization parameters are:
Background Avg: 699.85, Stdev: 29.11, Max: 749.0, Min: 651.9
Corner+ Avg:1805, Count:32
Corner- Avg:45324, Count:32
BF= SDT=127.3(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=26.25 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=127.3 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 TGT=1000 NF=1.000000 SF=1.212046 SFGene=All
 
Submission date Sep 27, 2001
Last update date May 27, 2005
Contact name Lynn Graf
E-mail(s) lgraf@fhcrc.org
Phone 206-667-4545
Fax 206-667-5978
URL http://none
Organization name Fred Hutchinson Cancer Research Center
Department Clinical Research Division
Lab Torok-Storb
Street address 1100 Fairview Ave. N. D1-100
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Platform ID GPL80
Series (1)
GSE500 CD34+ cell analysis

Data table header descriptions
ID_REF
VALUE AverageDifference hybridization intensity
POSITIVE number of pairs with positive signa
NEGATIVE number of pairs with negative signal
PAIRS number of PerfectMatch and MisMatch oligo pairs specifying sequence
PAIRS_USED number of pairs used for analysis
PAIRS_IN_AVG trimmed probe pair set
POS_FRACTION #positive probe pairs/#of probe pairs used
LOG_AVG log average ratio (see Affymetrix literature for formula)
POS/NEG ratio of positive to negative pairs
ABS_CALL absolute call of Presence or Absence of gene transcript in sample

Data table
ID_REF VALUE POSITIVE NEGATIVE PAIRS PAIRS_USED PAIRS_IN_AVG POS_FRACTION LOG_AVG POS/NEG ABS_CALL
AFFX-BioB-5_at 124.3 8 2 20 20 18 0.4 0.82 4 A
AFFX-BioB-M_at 118.2 7 0 20 20 18 0.35 1.09 Undef P
AFFX-BioB-3_at 879.2 17 2 20 20 19 0.85 3.81 8.5 P
AFFX-BioC-5_at 630 17 0 20 20 19 0.85 4.26 Undef P
AFFX-BioC-3_at 140.5 6 7 20 20 19 0.3 -0.06 0.9 A
AFFX-BioDn-5_at 774.6 14 0 20 20 18 0.7 3.04 Undef P
AFFX-BioDn-3_at -364.2 5 6 20 20 19 0.25 -0.17 0.8 A
AFFX-CreX-5_at 994.2 11 0 20 20 20 0.55 3.88 Undef P
AFFX-CreX-3_at 1070.1 13 1 20 20 18 0.65 3.35 13 P
AFFX-BioB-5_st 4614 17 0 20 20 19 0.85 4.19 Undef P
AFFX-BioB-M_st 338.1 8 4 20 20 18 0.4 1.23 2 A
AFFX-BioB-3_st 1132.2 12 1 20 20 19 0.6 2.4 12 P
AFFX-BioC-5_st -1137.9 3 9 20 20 18 0.15 -1.01 0.3 A
AFFX-BioC-3_st -1012.9 5 3 20 20 19 0.25 0.63 1.7 A
AFFX-BioDn-5_st 1459.6 14 1 20 20 18 0.7 3.2 14 P
AFFX-BioDn-3_st 300.3 10 4 20 20 18 0.5 0.85 2.5 A
AFFX-CreX-5_st -96 5 6 20 20 17 0.25 -0.76 0.8 A
AFFX-CreX-3_st 437.3 6 7 20 20 19 0.3 0.22 0.9 A
hum_alu_at 758.7 12 2 20 20 18 0.6 2.93 6 P
AFFX-DapX-5_at 132.2 9 3 20 20 18 0.45 1.36 3 P

Total number of rows: 7129

Table truncated, full table size 320 Kbytes.




Supplementary file Size Download File type/resource
GSM578.cel.gz 2.3 Mb (ftp)(http) CEL

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