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Sample GSM29572 Query DataSets for GSM29572
Status Public on Aug 25, 2005
Title Donor 5 1g 4 hr
Sample type RNA
 
Source name T-cells, peripheral blood
Organism Homo sapiens
Extracted molecule total RNA
 
Description Peripheral blood leukocytes of three human donors were isolated from blood bank buffy-coat preparations by Ficoll-Hypaque density gradient centrifugation, and T-cells were purified with high affinity negative selection human CD3+ T-cell enrichment columns. The cells were resuspended in RPMI-1640 with 10% FCS with approximately 3-8 millions cells/mL at room temperature overnight. T-cells were then either unactivated (1g 0 hr), activated (1g 4 hr) with a final concentration of 5 mg/mL Con A + 4 mg/mL anti-CD28 antibody and incubated for 4 hours at 37°C, or loaded onto a RPM rotating at 60°/s. T-cells loaded on the RPM were cultured for 2 hours prior to collection or activation to allow equilibration of cells to the new environment. After incubation, 1 mL of 4 M guanidinium isothiocyanate in 750 mM sodium citrate buffer, pH 7, with N-lauroylsarcosine and ß-mercaptoethanol was added to lyse cells and stabilize RNA. Lysates were frozen at -80°C.
Lot batch = 2001996
 
Submission date Aug 25, 2004
Last update date Oct 28, 2005
Contact name Jim Boonyaratanakornkit
E-mail(s) jim.boonyaratanakornkit@gmail.com
Phone 301-594-2589
Organization name NIH - NIAID
Department LID
Lab RVS
Street address 50 South Dr, Bldg 50, Rm 6513
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL201
Series (1)
GSE1709 STS107 T-cell activation at 1g vs. vg

Data table header descriptions
ID_REF
Stat Pairs The number of probe pairs in the probe set.
Stat Pairs Used The number of probe pairs in the probe set used to assign a detection call.
VALUE A median normalized quantitative measure of the relative abundance of a transcript.
ABS_CALL A qualitative measurement indicating if the transcript is detected (Present), not detected (Absent), or marginally detected (Marginal).
DETECTION P-VALUE A p-value indicating the significance of the Detection call. A Detection p-value measures the probability that the discrimination scores of all probe pairs in the probe set are above a threshold and that the target transcript is likely to be present.

Data table
ID_REF Stat Pairs Stat Pairs Used VALUE ABS_CALL DETECTION P-VALUE
1007_s_at 16 16 3.1785717 M 0.05447
1053_at 16 16 0.42857143 A 0.175949
117_at 16 16 2 P 0.011447
121_at 16 16 11.202381 P 0.008689
1255_g_at 16 16 0.40476194 A 0.438361
1294_at 16 16 2.6190479 P 0.007543
1316_at 16 16 1.0714287 P 0.043968
1320_at 16 16 0.14285716 A 0.824011
1431_at 16 16 0.6666667 P 0.021866
1438_at 16 16 0.25 A 0.5
1487_at 16 16 3.5952384 A 0.107301
1494_f_at 16 16 1.9642859 A 0.066865
1598_g_at 16 16 4.107143 A 0.189687
160020_at 16 16 1.5357144 A 0.11716
1729_at 16 16 3.809524 P 0.00418
177_at 16 16 0.17857143 A 0.602006
1773_at 16 16 1.3690478 A 0.162935
1861_at 16 16 0.15476191 A 0.64131
200000_s_at 11 11 19.476192 P 0.000244
200001_at 11 11 11.535715 P 0.005859

Total number of rows: 8793

Table truncated, full table size 325 Kbytes.




Supplementary file Size Download File type/resource
GSM29572.CEL.gz 1.2 Mb (ftp)(http) CEL
GSM29572.EXP.gz 482 b (ftp)(http) EXP
GSM29572.rpt.gz 813 b (ftp)(http) RPT

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