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Sample GSM102112

Query DataSets for GSM102112

Status

Public on May 31, 2006

Title

CD4+ CD25-_3

Sample type

RNA

Source name

CD4+CD25-

Organism

Mus musculus

Characteristics

genetic modification:
tissue: T-cells from spleen

Growth protocol

ex vivo

Extracted molecule

total RNA

Extraction protocol

Qiagen RNAeasy

Label

biotin

Label protocol

Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

Hybridization protocol

Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

Scan protocol

GeneChips were scanned using the Affymetrix GCS 3000.

Description

CD4+ CD25-_3

Data processing

The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.

Submission date

Mar 29, 2006

Last update date

May 31, 2006

Contact name

Robert Geffers

E-mail(s)

robert.geffers@helmholtz-hzi.de

Phone

+49 531-6181-3058

Organization name

HCI - Helmholtz Centre for Infection Research

Department

Dep. Molecular Bacteriology

Lab

Genome Analytics

Street address

Inhoffenstr. 7

City

Braunschweig

ZIP/Postal code

38124

Country

Germany

Platform ID

GPL339

Series (1)

GSE4571

Expression profiling of Treg cell versus their controls in human and mouse

Data table header descriptions
ID_REF
VALUE	MAS5-calculated Signal intensity
ABS_CALL	the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
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	340.7	P	0.001102
AFFX-BioB-M_at	837.2	P	0.000052
AFFX-BioB-3_at	403.2	P	0.001102
AFFX-BioC-5_at	2307.4	P	0.00006
AFFX-BioC-3_at	1389.2	P	0.00006
AFFX-BioDn-5_at	3448.5	P	0.000044
AFFX-BioDn-3_at	7392.3	P	0.000044
AFFX-CreX-5_at	11776	P	0.000044
AFFX-CreX-3_at	20288.4	P	0.000044
AFFX-DapX-5_at	30.1	A	0.275146
AFFX-DapX-M_at	10.3	A	0.617401
AFFX-DapX-3_at	5.9	A	0.971543
AFFX-LysX-5_at	13.7	A	0.699394
AFFX-LysX-M_at	48.1	A	0.227636
AFFX-LysX-3_at	42.1	A	0.275146
AFFX-PheX-5_at	8.4	A	0.876428
AFFX-PheX-M_at	11.1	A	0.760937
AFFX-PheX-3_at	37.6	A	0.699394
AFFX-ThrX-5_at	10.7	A	0.9273
AFFX-ThrX-M_at	17	A	0.659339

Total number of rows: 22690

Table truncated, full table size 612 Kbytes.

Supplementary data files not provided