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| Status |
Public on Aug 01, 2013 |
| Title |
Gene expression profiling of zebrafish embryos at 5 days post fertilization [Illumina RNA-Seq] |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We compared Agilent custom made expression microarrays with Illumina deep sequencing for RNA analysis of zebrafish embryos 5 days post fertilization, showing as expected a high degree of correlation of expression of a common set of 15,927 genes for untreated fish. The transcriptomes were also compared for fish injected in the yolk with Mycobacterium marinum
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| Overall design |
This RNA deep sequencing study was designed to determine the gene expression profile of zebrafish embryos 5 days post fertilization. We also have compared expression with embryos that were injected with Mycobacterium marinum in the yolk at 2 hours post fertilization. After injections embryos were transferred into fresh egg water and incubated at 28°C. 150 embryos of mock-injected embryos or 200 embryos injected with 12 CFU bacteria were snap-frozen in liquid nitrogen, and total RNA was isolated using TRIZOL reagent.
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| Contributor(s) |
Spaink HP, Dirks R, Veneman W |
| Citation(s) |
24156766, 23586901, 25503064 |
| Submission date |
Feb 15, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Herman Pieter Spaink |
| E-mail(s) |
h.p.spaink@biology.leidenuniv.nl
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| Phone |
31715275055
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| Organization name |
Leiden University
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| Department |
Institute of Biology
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| Lab |
Molecular Cell Biology
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| Street address |
Einsteinweg 55
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| City |
Leiden |
| ZIP/Postal code |
2333 CC |
| Country |
Netherlands |
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| Platforms (1) |
| GPL14875 |
Illumina HiSeq 2000 (Danio rerio) |
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| Samples (3) |
| GSM1083653 |
zebrafish 5 days old larvae total RNA |
| GSM1083654 |
zebrafish 5 days old larvae yolk infection with Mycobacterium marinum total RNA |
| GSM1083655 |
zebrafish 5 days old larvae injected with PVP as a control |
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| This SubSeries is part of SuperSeries: |
| GSE44352 |
Gene expression profiling of zebrafish embryos at 5 days post fertilization |
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| Relations |
| BioProject |
PRJNA189536 |
| SRA |
SRP018699 |
