Sample Set Annotation Tool: Analysis of the impact of the method of cell selection on the gene expression profile of human CD4 and CD8 T cells-GSE14926

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Negative immunomagnetic selection has become the method of choice for isolating T cell subsets for functional studies due to concerns that directly binding antibody to the surface of a cell, as occurs with positive selection, results in cross-linking of surface antigens, altered gene transcription and subsequent cellular activation. However there is little data to support this. We therefore examined the impact of the method of immunomagnetic cell selection on the gene expression profile of healthy human CD4 and CD8 T cells in a total of 21 cases.

Hypothesis

Experimental Design

This study was composed of 4 groups of samples: CD4 Negative Selection (n=5), CD4 Positive Selection (n=5), CD8 Negative Selection (n=5), CD8 Positive Selection (n=6). Two samples (PS6 CD8 and PS9 CD4) were removed from the analysis due to discrepant normalised unscaled standard errors

Experimental Variables

Controls

Methods

Additional Information

Expected Samples:

19 Samples Loaded: 19

Species

Human (Homo sapiens)

Sample Source

CD4 T cells , CD8 T cells

Disease

Healthy

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	Age	Gender	!Sample_title	Cell type	t_cell_purity
GSM372800	30	Male	N_CD4_1	CD4-Neg	89%
GSM372801	44	Female	N_CD4_2	CD4-Neg	95.50%
GSM372802	47	Female	N_CD4_3	CD4-Neg	92%
GSM372803	33	Female	N_CD4_4	CD4-Neg	94%
GSM372804	44	Male	N_CD4_5	CD4-Neg	94%

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File
sampleset4000045_sampleannotations.csv Sample Set Spreadsheet

Samples Viewer / Editor

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Sample ID	Age	Gender	!Sample Title	Cell type	T Cell Purity
GSM372800	30	Male	N_CD4_1	CD4-Neg	89%
GSM372801	44	Female	N_CD4_2	CD4-Neg	95.50%
GSM372802	47	Female	N_CD4_3	CD4-Neg	92%
GSM372803	33	Female	N_CD4_4	CD4-Neg	94%
GSM372804	44	Male	N_CD4_5	CD4-Neg	94%
GSM372805	44	Female	P_CD4_6	CD4 -Pos	96.30%
GSM372806	47	Female	P_CD4_7	CD4 -Pos	97.50%
GSM372807	33	Female	P_CD4_8	CD4 -Pos	90%
GSM372808	27	Female	P_CD4_10	CD4 -Pos	92%
GSM372809	35	Male	N_CD8_1	CD8-Neg	91%
GSM372810	33	Male	N_CD8_2	CD8-Neg	88%
GSM372811	37	Male	N_CD8_3	CD8-Neg	83%
GSM372812	33	Female	N_CD8_4	CD8-Neg	87%
GSM372813	44	Male	N_CD8_5	CD8-Neg	76%
GSM372814	37	Male	P_CD8_7	CD8-Pos	94.10%
GSM372815	44	Male	P_CD8_8	CD8-Pos	89.50%
GSM372816	33	Female	P_CD8_9	CD8-Pos	93.30%
GSM372817	31	Male	P_CD8_10	CD8-Pos	89%
GSM372818	31	Male	P_CD8_11	CD8-Pos	87%

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Module Analysis

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SIDRA