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Sample GSM140922 Query DataSets for GSM140922
Status Public on Jan 10, 2009
Title T cell_Cycloheximide_30min_rep4
Sample type RNA
 
Source name T cells, IL-2 starved for 14 hours followed by cycloheximide for 30min
Organism Mus musculus
Characteristics Cytotoxic T lymphocyte cell line CTLL-2, derived from a C57BL/6 mouse, dependent upon IL-2 for growth
Biomaterial provider The American Type Culture Collection (ATCC)
Treatment protocol Cells were cultured in D10 medium in an incubator with 5% CO2 at 37oC to mid-log phase (~2 X 105 cells/mL), and collected by centrifugation, washed with phosphate buffered saline (PBS) (Invitrogen), resuspended at 1 X 106 cells/mL in the medium without IL-2 (IL-2 starvation) and cultured for 14 hours at 37oC with 5% CO2, followed by treatment with cycloheximide (20 ?g/mL) for 30min at 37oC with 5% CO2.
Growth protocol Mouse CTLL-2 cells was maintained in an incubator with 5% CO2 at 37oC in D10 medium (D10 = ATCC modified RPMI-1640 medium (10 mM HEPES, 2 mM L-glutamine, 1 mM Sodium pyruvate, 4.5 g/L glucose, 1.5 g/L sodium bicarbonate), supplemented with 10% fetal bovine serum, 2 mM L-glutamine, 50 U/mL penicillin, 50 mg/mL streptomycin, 1 mM sodium pyruvate, 45 µM ?-mercaptoethanol), and 50 U/mL human rIL-2 (Chiron).
Extracted molecule total RNA
Extraction protocol Cells was collected and washed with PBS, resuspended in PBS before adding RNAlater RNA stabilization solution (Qiagen). Total RNA was isolated using RNeasy Mini Kit (Qiagen) according to manufacturer’s protocol.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ?g total RNA (GeneChip Expression Analysis, Technical Manual (701021 Rev. 5), 2005, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ?g of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using Affymetrix Gene-Chip scanner 3000.
Description Gene expression data from T cells cultured without IL-2 for 14 hours followed by cycloheximide for 30min
Data processing The data were analyzed with Affymetric GeneChip Operating Software (GCOS, version 1.3) using Affymetrix default analysis settings and global scaling as normalization method.
 
Submission date Oct 19, 2006
Last update date Aug 28, 2018
Contact name Zhaoduo Zhang
E-mail(s) zzhang@sandia.gov
Phone 925-294-2513
Fax 925-294-3282
Organization name Sandia National Labs
Department Biosystems
Street address 7011 East Ave
City Livermore
State/province CA
ZIP/Postal code 94551
Country USA
 
Platform ID GPL1261
Series (1)
GSE6084 Expression data from Murine T cell in response to cycloheximide treatment
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE GCOS-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 424.7 P 0.000857
AFFX-BioB-M_at 656.5 P 0.000169
AFFX-BioB-3_at 520.5 P 0.006871
AFFX-BioC-5_at 1263.7 P 0.000044
AFFX-BioC-3_at 1284 P 0.000052
AFFX-BioDn-5_at 2031.1 P 0.000044
AFFX-BioDn-3_at 2799 P 0.000052
AFFX-CreX-5_at 12838.9 P 0.000044
AFFX-CreX-3_at 16211.5 P 0.000044
AFFX-DapX-5_at 2723.2 P 0.000052
AFFX-DapX-M_at 4172.2 P 0.000052
AFFX-DapX-3_at 5595.9 P 0.000044
AFFX-LysX-5_at 237.2 P 0.00011
AFFX-LysX-M_at 335.7 P 0.000446
AFFX-LysX-3_at 763.9 P 0.000081
AFFX-PheX-5_at 452.7 P 0.000147
AFFX-PheX-M_at 580.1 P 0.000052
AFFX-PheX-3_at 619.8 P 0.000095
AFFX-ThrX-5_at 659.1 P 0.000081
AFFX-ThrX-M_at 875.4 P 0.000044

Total number of rows: 45101

Table truncated, full table size 1207 Kbytes.




Supplementary file Size Download File type/resource
GSM140922.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM140922.EXP.gz 328 b (ftp)(http) EXP

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