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| Status |
Public on Aug 30, 2019 |
| Title |
24h-Blood |
| Sample type |
SRA |
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| Source name |
Midguts
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| Organism |
Aedes aegypti |
| Characteristics |
strain: Rockefeller
tissues: Midguts
age: 7days
treatment: none
time point: 24h
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| Treatment protocol |
7 days old mosquitos were blood fed with or without 250 um ferric ammonium citrate, then treated after 24,48 hours.
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| Growth protocol |
Aedes Aegypti was reared at 28℃ and 80% humidity.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Midguts were dissected from mosquitoes, and total RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
blood feeding
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| Data processing |
HCS 2.012 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Aedes Aegypti genome using SOAPaligner/SOAP2
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library.
Annotating to the KEGG database by BLAST(-p blastx -e 1e-5 -m 8).
Annotating the results that from BLAST(-p blastx -e 1e-5 -m 7)sequences to Nr database of NCBI to the terms of GO by use BLAST2GO(default parameters).
Genome_build: NOIseq method coming from Sonia Tarazona et al., Genome Research, 2011., was applied to screen differentially expressed genes between two groups
Supplementary_files_format_and_content: Aaegl3.3
Supplementary_files_format_and_content: Excel files include RPKM values, log2 ratio, P values, FDR, KEGG Orthology, and GO analysis for each Sample ...
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| Submission date |
Aug 24, 2018 |
| Last update date |
Aug 30, 2019 |
| Contact name |
Yibin Zhu |
| E-mail(s) |
zhuyibin1989@126.com
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| Phone |
18515653980
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| Organization name |
Tsinghua University
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| Street address |
Tsinghua, Beijing, China
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| City |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
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| Platform ID |
GPL21020 |
| Series (1) |
| GSE119036 |
Human iron status mediates mosquito susceptibility to Dengue infection |
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| Relations |
| BioSample |
SAMN09927474 |
| SRA |
SRX4616769 |
| 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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