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| Status |
Public on Jul 10, 2018 |
| Title |
Predicting microRNA targeting efficacy in Drosophila |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
A series of transfections was performed in Drosophila S2 cells to explore: 1) the types of target sites that Drosophila microRNAs recognize, 2) the relative functional efficacy of these sites in mediating repression, and 3) the determinants that allow some sites to have greater potency than others. 3p-seq was also performed to help reannotate and quantify the landscape of 3' UTRs in Drosophila S2 cells.
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| Overall design |
Nine mRNA profiles were generated, with Drosophila S2 cells transfected with one of 6 microRNAs (miR-1, miR-4, miR-92a, miR-124, miR-263a, and miR-997). These samples were compared to 3 biological replicates of a mock transfection condition. 3p-seq data for S2 cells was also generated to help reannotate and quantify 3' UTR isoforms.
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| Contributor(s) |
Agarwal V, Subtelny AO, Thiru P, Ulitsky I, Bartel DP |
| Citation(s) |
30286781 |
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| Submission date |
Nov 02, 2015 |
| Last update date |
Oct 09, 2018 |
| Contact name |
Vikram Agarwal |
| E-mail(s) |
[email protected]
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| Organization name |
Calico Life Sciences
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| Street address |
1130 Veterans Blvd
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| City |
South San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94080 |
| Country |
USA |
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| Platforms (1) |
| GPL9061 |
Illumina Genome Analyzer II (Drosophila melanogaster) |
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| Samples (10)
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| Relations |
| BioProject |
PRJNA300870 |
| SRA |
SRP065612 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE74581_RAW.tar |
6.7 Mb |
(http)(custom) |
TAR (of BED, TXT) |
SRA Run Selector |
| Processed data provided as supplementary file |
| Raw data are available in SRA |
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