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Status |
Public on May 31, 2020 |
Title |
CTRL cGAMP 6 B3 |
Sample type |
SRA |
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Source name |
Whole Organism
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Organism |
Drosophila melanogaster |
Characteristics |
genotype: w[1118] treatment: 2'3'-cGAMP 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 |
B3_CTRL_cGAMP_6
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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 |
SAMN13383548 |
SRA |
SRX7213593 |
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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