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| Status |
Public on May 01, 2022 |
| Title |
blood feeding with 2 μM hsa-miR-150-5p antagomir (RNA-seq) |
| Sample type |
SRA |
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| Source name |
whole body
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| Organism |
Aedes aegypti |
| Characteristics |
strain: Rockefeller
tissue: whole body
treatment: hsa-miR-150-5p antagomir
time: 3 days
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| Treatment protocol |
7 days old mosquitos were fed a blood meal, then cultured after 3 days
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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 |
The total mosquito 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
Sample name: B
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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).
NOIseq method coming from Sonia Tarazona et al., Genome Research, 2011., was applied to screen differentially expressed genes between two groups
Genome_build: AaegL5.0
Supplementary_files_format_and_content: BvsA_deg_up.txt includes RPKM values, log2 ratio, P values, FDR, KEGG Orthology, and GO analysis for each Sample
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| Submission date |
Feb 22, 2021 |
| Last update date |
May 01, 2022 |
| 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 (2) |
| GSE167210 |
Identification of mosquito genes regulated after blood meal with hsa-miR-150-5p antagomir |
| GSE167348 |
A human blood-derived microRNA facilitates flavivirus infection in fed mosquitoes |
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| Relations |
| BioSample |
SAMN18025504 |
| SRA |
SRX10149278 |
| 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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