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| Status |
Public on Aug 04, 2006 |
| Title |
Designing siRNA that distinguish between genes that differ by a single nucleotide |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
Small interfering RNAs (siRNAs), the guides that direct RNA interference (RNAi), provide a powerful tool to reduce the expression of a single gene in human cells. Ideally, dominant, gain-of-function human diseases could be treated using siRNAs that specifically silence the mutant disease allele, while leaving expression of the wild-type allele unperturbed. Previous reports suggest that siRNAs can be designed with single-nucleotide specificity, but no rational basis for the design of siRNAs with single nucleotide discrimination has been proposed.
Keywords: siRNA, single-nucleotide discrimination, SOD1, allele-specific
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| Overall design |
We transfected the siRNAs into cultured human HeLa cells at 100 nM final
concentration. Amplified cRNA from siRNA-transfected cells was hybridized against cRNA from mock-transfected cells (treated with transfection reagent in the absence of RNA duplex). Ratio hybridizations were performed with fluorescent label reversal to eliminate dye bias.
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| Contributor(s) |
Schwarz DS, Ding H, Kennington L, Moore JT, Schelter J, Burchard J, Linsley PS, Aronin N, Xu Z, Zamore PD |
| Citation(s) |
16965178 |
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| Submission date |
Jul 11, 2006 |
| Last update date |
Mar 16, 2012 |
| Contact name |
Julja Burchard |
| Organization name |
Merck & Co., Inc.
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| Department |
Computational & Systems Biology
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| Street address |
33 Avenue Louis Pasteur
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| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02176 |
| Country |
USA |
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| Platforms (1) |
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| Samples (18)
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| GSM119707 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 1 |
| GSM119708 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 2 |
| GSM119709 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 3 |
| GSM119710 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 4 |
| GSM119741 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 5 |
| GSM119742 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 6 |
| GSM119743 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 7 |
| GSM119744 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 8 |
| GSM119745 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 9 |
| GSM119746 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 10 |
| GSM119747 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 11 |
| GSM119748 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 12 |
| GSM119749 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 13 |
| GSM119750 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 14 |
| GSM119759 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 15 |
| GSM119761 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 16 |
| GSM119762 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 18 |
| GSM119763 |
HeLa, mock, 24 hr vs. HeLa, SOD1 SNP at position 19 |
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| Relations |
| BioProject |
PRJNA96413 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE5291_RAW.tar |
21.8 Mb |
(http)(custom) |
TAR (of TXT) |
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