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| Status |
Public on Oct 30, 2008 |
| Title |
Differential gene expression profiles are dependent upon method of peripheral blood RNA isolation (direct, heparin) |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
RNA isolation and purification steps greatly influence the results of gene expression profiling. There are two commercially available products for whole blood RNA collection, PAXgene and Tempus blood collection tubes, and each comes with their own RNA purification method. We examined the impact of RNA isolation methods on gene expression profiles.
We demonstrated that peripheral blood RNA isoaltion can critically impact differential expression results, particularly in the clinical setting where fold-change differences are typically small and there is inherent variability within biological corhorts
Keywords: micorarray quality assurance
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| Overall design |
Comparison of 5 healthy control samples drawn directly in PAXgene or Tempus tubes vs. the same 5 healthy control samples drawn in Li Heparin tubes with no PHA stimulation.
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| Contributor(s) |
Asare AL, Kolchinsky SA, Gao Z, Wang R, Raddassi K, Bourcier K, Seyfert-Margolis V |
| Citation(s) |
18847473 |
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| Submission date |
Sep 09, 2008 |
| Last update date |
Mar 25, 2019 |
| Contact name |
Zhong Gao |
| Organization name |
Johns Hopkins University
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| Street address |
Ross 844 720 Rutland Avenue
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| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21205 |
| Country |
USA |
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| Platforms (1) |
| GPL570 |
[HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array |
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| Samples (20)
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| GSM318889 |
Direct draw, Tempus tube, replicate R (Blood_direct_ABI_R) |
| GSM318890 |
Direct draw, PAXgene tube, replicate R (Blood_direct_PAX_R) |
| GSM318891 |
Heparin, Tempus tube, replicate R (Blood_Heparin_ABI_R) |
| GSM318892 |
Heparin, PAXgene tube, replicate R (Blood_Heparin_PAX_R) |
| GSM318893 |
Direct draw, Tempus tube, replicate S (Blood_direct_ABI_S) |
| GSM318894 |
Direct draw, PAXgene tube, replicate S (Blood_direct_PAX_S) |
| GSM318895 |
Heparin, Tempus tube, replicate S (Blood_Heparin_ABI_S) |
| GSM318896 |
Heparin, PAXgene tube, replicate S (Blood_Heparin_PAX_S) |
| GSM318897 |
Direct draw, Tempus tube, replicate T (Blood_direct_ABI_T) |
| GSM318898 |
Direct draw, PAXgene tube, replicate T (Blood_direct_PAX_T) |
| GSM318899 |
Heparin, Tempus tube, replicate T (Blood_Heparin_ABI_T) |
| GSM318900 |
Heparin, PAXgene tube, replicate T (Blood_Heparin_PAX_T) |
| GSM318901 |
Direct draw, Tempus tube, replicate U (Blood_direct_ABI_U) |
| GSM318902 |
Direct draw, PAXgene tube, replicate U (Blood_direct_PAX_U) |
| GSM318903 |
Heparin, Tempus tube, replicate U (Blood_Heparin_ABI_U) |
| GSM318904 |
Heparin, PAXgene tube, replicate U (Blood_Heparin_PAX_U) |
| GSM318905 |
Direct draw, Tempus tube, replicate Y (Blood_direct_ABI_Y) |
| GSM318906 |
Direct draw, PAXgene tube, replicate Y (Blood_direct_PAX_Y) |
| GSM318907 |
Heparin, Tempus tube, replicate Y (Blood_Heparin_ABI_Y) |
| GSM318908 |
Heparin, PAXgene tube, replicate Y (Blood_Heparin_PAX_Y) |
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| This SubSeries is part of SuperSeries: |
| GSE12711 |
Differential gene expression profiles are dependent upon method of peripheral blood RNA isolation |
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| Relations |
| BioProject |
PRJNA114243 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE12710_RAW.tar |
157.9 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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