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| Status |
Public on May 31, 2020 |
| Title |
CTRL Tris 12 B1 |
| Sample type |
SRA |
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| Source name |
Whole Organism
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| Organism |
Drosophila melanogaster |
| Characteristics |
genotype: w[1118]
treatment: Tris
life stage: Adults (3-5 days old)
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| Treatment protocol |
Intrathoraric injection of 69 nl of Tris, 2'3' cGAMP or cyclic-di-GMP
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| Growth protocol |
Drosophila were kept in standard cornmeal agar medium at 25ºC, 12h:12h light/dark cycle
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction using Trizol
NEBNext® Ultra™ Directional RNA Library Prep Kit for Illumina
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
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| Description |
B1_CTRL_tris_12
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| Data processing |
Base-calling was done by HiSeq X Ten
Reads trimmed with Trimmomatic (-leading 3, -trailing 3, -slidingwindow 4:20 -maxinfo 100:0.2 -minlength 80) and mapped with STAR (v2.5.3.) using default parameters except maximum intron size <30kbp
Counts were aggregated at the gene level using featureCounts, assigning reads overlapping multiple genes to all of them (-O) and counting multimapping reads (-M)
Normalized read counts were obtained with DESeq2, based on a factorial design of Genotype and Treatment, with experimental batch as an additional variable
Genome_build: BDGP6.22
Supplementary_files_format_and_content: counts
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| Submission date |
Nov 25, 2019 |
| Last update date |
May 31, 2020 |
| Contact name |
Nelson Eduardo Martins |
| E-mail(s) |
nelson.e.v.martins@gmail.com, nmartins@ibmc-cnrs.unistra.fr
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| Organization name |
CNRS UPR9022/IBMC
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| Street address |
2 Allee Konrad Roentgen
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| City |
Strasbourg |
| ZIP/Postal code |
670000 |
| Country |
France |
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| Platform ID |
GPL23702 |
| Series (1) |
| GSE140955 |
RNAseq of 2'3' cGAMP injected Drosophila melanogaster |
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| Relations |
| BioSample |
SAMN13383541 |
| SRA |
SRX7213576 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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