The effect of cell subset isolation method on gene expression in leukocytes-GSE50008
Analysis of the effect of isolation methods (fluorescence activated cell sorting (FACS), positive and negative immunomagnetic selection) on gene expression in human primary CD4+, CD8+ T cells, B cells and monocytes.FACS incurs the least short-term changes in gene expression signature.
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This study evaluated the short-term effects on gene expression in four leukocyte subsets (CD4+, CD8+ T cells, B cells and monocytes) of the three commonly used isolation methods (FACS, positive and negative selection) in order to identify the optimal method for cell isolation for gene expression studies in patient samples where gene expression pertaining to a disease state or treatment is of interest and gene expression caused by cell handing is minimized.
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| Sample ID | !Sample_title | cell type | isolation method |
|---|---|---|---|
| GSM1212208 | Donor1_pos_CD4 | primary CD4+ T cells | Positive selection |
| GSM1212209 | Donor5_neg_CD8 | primary CD8+ T cells | Negative selection |
| GSM1212210 | Donor2_pos_B | primary B cells | Positive selection |
| GSM1212211 | Donor3_neg_CD4 | primary CD4+ T cells | Negative selection |
| GSM1212212 | Donor4_pos_mono | primary monocytes | Positive selection |
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| Sample ID | !Sample Title | Cell type | Isolation method |
|---|---|---|---|
| GSM1212208 | Donor1_pos_CD4 |
primary CD4+ T cells |
Positive selection |
| GSM1212209 | Donor5_neg_CD8 |
primary CD8+ T cells |
Negative selection |
| GSM1212210 | Donor2_pos_B |
primary B cells |
Positive selection |
| GSM1212211 | Donor3_neg_CD4 |
primary CD4+ T cells |
Negative selection |
| GSM1212212 | Donor4_pos_mono |
primary monocytes |
Positive selection |
| GSM1212213 | Donor3_FACS_B |
primary B cells |
FACS |
| GSM1212214 | Donor2_pos_CD8 |
primary CD8+ T cells |
Positive selection |
| GSM1212215 | Donor4_FACS_CD4 |
primary CD4+ T cells |
FACS |
| GSM1212216 | Donor4_pos_B |
primary B cells |
Positive selection |
| GSM1212217 | Donor4_neg_CD4 |
primary CD4+ T cells |
Negative selection |
| GSM1212218 | Donor5_neg_B |
primary B cells |
Negative selection |
| GSM1212219 | Donor2_pos_CD4 |
primary CD4+ T cells |
Positive selection |
| GSM1212220 | Donor2_FACS_CD8 |
primary CD8+ T cells |
FACS |
| GSM1212221 | Donor5_pos_mono |
primary monocytes |
Positive selection |
| GSM1212222 | Donor1_FACS_CD4 |
primary CD4+ T cells |
FACS |
| GSM1212223 | Donor3_neg_CD8 |
primary CD8+ T cells |
Negative selection |
| GSM1212224 | Donor2_neg_CD4 |
primary CD4+ T cells |
Negative selection |
| GSM1212225 | Donor3_pos_CD8 |
primary CD8+ T cells |
Positive selection |
| GSM1212226 | Donor5_neg_mono |
primary monocytes |
Negative selection |
| GSM1212227 | Donor3_pos_CD4 |
primary CD4+ T cells |
Positive selection |
| GSM1212228 | Donor4_FACS_CD8 |
primary CD8+ T cells |
FACS |
| GSM1212229 | Donor1_pos_mono |
primary monocytes |
Positive selection |
| GSM1212230 | Donor3_FACS_CD8 |
primary CD8+ T cells |
FACS |
| GSM1212231 | Donor3_neg_mono |
primary monocytes |
Negative selection |
| GSM1212232 | Donor2_FACS_mono |
primary monocytes |
FACS |
| GSM1212233 | Donor5_pos_CD8 |
primary CD8+ T cells |
Positive selection |
| GSM1212234 | Donor1_FACS_B |
primary B cells |
FACS |
| GSM1212235 | Donor4_pos_CD4 |
primary CD4+ T cells |
Positive selection |
| GSM1212236 | Donor2_neg_B |
primary B cells |
Negative selection |
| GSM1212237 | Donor5_FACS_CD4 |
primary CD4+ T cells |
FACS |
| GSM1212238 | Donor4_neg_CD8 |
primary CD8+ T cells |
Negative selection |
| GSM1212239 | Donor4_neg_B |
primary B cells |
Negative selection |
| GSM1212240 | Donor3_FACS_CD4 |
primary CD4+ T cells |
FACS |
| GSM1212241 | Donor1_pos_CD8 |
primary CD8+ T cells |
Positive selection |
| GSM1212242 | Donor5_neg_CD4 |
primary CD4+ T cells |
Negative selection |
| GSM1212243 | Donor2_pos_mono |
primary monocytes |
Positive selection |
| GSM1212244 | Donor2_FACS_B |
primary B cells |
FACS |
| GSM1212245 | Donor5_FACS_CD8 |
primary CD8+ T cells |
FACS |
| GSM1212246 | Donor3_pos_B |
primary B cells |
Positive selection |
| GSM1212247 | Donor1_neg_mono |
primary monocytes |
Negative selection |
| GSM1212248 | Donor2_FACS_CD4 |
primary CD4+ T cells |
FACS |
| GSM1212249 | Donor4_pos_CD8 |
primary CD8+ T cells |
Positive selection |
| GSM1212250 | Donor1_neg_CD4 |
primary CD4+ T cells |
Negative selection |
| GSM1212251 | Donor3_pos_mono |
primary monocytes |
Positive selection |
| GSM1212252 | Donor3_neg_B |
primary B cells |
Negative selection |
| GSM1212253 | Donor1_FACS_CD8 |
primary CD8+ T cells |
FACS |
| GSM1212254 | Donor5_pos_CD4 |
primary CD4+ T cells |
Positive selection |
| GSM1212255 | Donor2_neg_CD8 |
primary CD8+ T cells |
Negative selection |
| GSM1212256 | Donor5_pos_B |
primary B cells |
Positive selection |
| GSM1212257 | Donor4_neg_mono |
primary monocytes |
Negative selection |
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|---|---|---|
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