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| Status |
Public on Dec 31, 2014 |
| Title |
mRNA profiling of JHDM2 knockdown Drosophila midguts post-infection with Ecc15 |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We performed an mRNA-sequencing experiment using Drosophila midgut to find JHDM2-dependent signaling pathways in response to bacterial challenge and downstream target genes that are epigenetically regulated across genome. The sequenced reads from Illumina Hiseq2000 that passed quality filters were mapped to Drosophila genome (dm3) using Tophat and then quantitatively analyzed by Cufflinks at the gene level. By comparing Wild type and JHDM2 knock-down samples post-infection with Ecc15, we profiled JHDM2-dependent gene expression changes induced by Ecc15 infection.
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| Overall design |
mRNA expression profiles of JHDM2 knockdown Drosophila midgut and control Drosophila midgut at 4 and 16hr post-infection with Ecc15 were examined by Illumina Hiseq2000.
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| Contributor(s) |
Baek SH, Lee W, Hwang D, Kim H, Bhin J |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Jan 02, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Bhin Jin-hyuk |
| E-mail(s) |
bynjh007@postech.ac.kr
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| Organization name |
POSTECH
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| Department |
Department of Chemical engineering
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| Lab |
Systems biology and Medicine
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| Street address |
Ji-gok research center, hyoja-dong, Nam-gu
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| City |
Pohang |
| ZIP/Postal code |
790-784 |
| Country |
South Korea |
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| Platforms (1) |
| GPL13304 |
Illumina HiSeq 2000 (Drosophila melanogaster) |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA232941 |
| SRA |
SRP034884 |
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