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| Status |
Public on Oct 31, 2016 |
| Title |
Gene expression in Aspergillus fumigatus at different developmental stages |
| Organism |
Aspergillus fumigatus |
| Experiment type |
Expression profiling by array
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| Summary |
Microarray analysis was used to compare different divelopmental stages of the filamentous fungi Aspergillus fumigatus af293. Cells were grone for various times and comparisons made between: 1. Dormant conidia (0 hours) and isotropically expanding cells (1hr). 2. Dormant conidia (0 hours) and isotropically expanding cells (2hr) . 3. Dormant conidia (0 hours) and isotropically expanding cells (4hr). 4. Isotropically expanding cells (4hr) and polarity extending cells (6hr). 4. Isotropically expanding cells (4hr) and germ tube (8hr).
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| Overall design |
A total of 6 hybridizations were performed for each microarray experiment described in summary. The following replicates were carried out: 1. Three biological replicates were performed using cultures grown in parallel. 2. Technical 'dye swap' replicates were carried out for each biological replicate.
Please note that [1] each array slide has two spots of same probes, and thus, data was merged and analyzed as described in the sample data processing field.
[2] The normalized data derived from each raw data file 'before the intensities across two technical repeats are averaged' are provided in the *normalized_MDS.mev file and sample data tables include the averaged data of two technical repeats.
[3] For the value in each sample data table, we have performed dye-swapped two slides and normalized at same time. Each slide have two spots for one gene, so we performed In-slide replicate analysis (averaged) and statistic analysis. At final step, fold change ratio (FC) was calculated as 1hr/0hr, 2hr/0hr, 4hr/0hr, 6hr/4hr, 8hr/4hr in each experiment as and then Log2-treansformed (log2 FC).
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| Contributor(s) |
Oda K, Momany M |
| Citation(s) |
27664992 |
| Submission date |
Nov 25, 2015 |
| Last update date |
Nov 22, 2016 |
| Contact name |
Ken Oda |
| E-mail(s) |
k.oda@nrib.go.jp
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| Phone |
+81-82-4200824
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| Organization name |
National research institute of brewing
|
| Department |
Fundamental research division
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| Lab |
Fungal biology lab.
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| Street address |
3-7-1 Kagamiyama
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| City |
Higashihiroshima |
| State/province |
Hiroshima |
| ZIP/Postal code |
739-0046 |
| Country |
Japan |
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| Platforms (2) |
| GPL6085 |
TIGR PFGRC Aspergillus fumigatus v2 array designed primarily based on strain Af293 |
| GPL8346 |
TIGR PFGRC Aspergillus fumigatus 22K v3 array (designed primarily based on strain Af293) |
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| Samples (15)
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| GSM1954530 |
Aspergillus fumigatus 0hr vs 1hr biological replicate 1 |
| GSM1954531 |
Aspergillus fumigatus 0hr vs 1hr biological replicate 2 |
| GSM1954532 |
Aspergillus fumigatus 0hr vs 1hr biological replicate 3 |
| GSM1954533 |
Aspergillus fumigatus 0hr vs 2hr biological replicate 1 |
| GSM1954534 |
Aspergillus fumigatus 0hr vs 2hr biological replicate 2 |
| GSM1954535 |
Aspergillus fumigatus 0hr vs 2hr biological replicate 3 |
| GSM1954536 |
Aspergillus fumigatus 0hr vs 4hr biological replicate 3 |
| GSM1954537 |
Aspergillus fumigatus 4hr vs 6hr biological replicate 3 |
| GSM1954538 |
Aspergillus fumigatus 4hr vs 8hr biological replicate 1 |
| GSM1954539 |
Aspergillus fumigatus 4hr vs 8hr biological replicate 2 |
| GSM1954540 |
Aspergillus fumigatus 4hr vs 8hr biological replicate 3 |
| GSM1954541 |
Aspergillus fumigatus 0hr vs 4hr biological replicate 1 |
| GSM1954542 |
Aspergillus fumigatus 0hr vs 4hr biological replicate 2 |
| GSM1954543 |
Aspergillus fumigatus 4hr vs 6hr biological replicate 1 |
| GSM1954544 |
Aspergillus fumigatus 4hr vs 6hr biological replicate 2 |
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| Relations |
| BioProject |
PRJNA304149 |
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