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Sample GSM5799248

Query DataSets for GSM5799248

Status

Public on May 18, 2022

Title

F3_input

Sample type

SRA

Source name

Anopheles sinensis

Organism

Anopheles sinensis

Characteristics

Stage: adult
Sex: female
m6a antibody: none

Extracted molecule

polyA RNA

Extraction protocol

Total RNA of male and female adult Anopheles sinensis was extracted separately using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions. The Poly (A) RNA was purified from 200 μg total RNA using one round Dynabeads Oligo (dT) (Thermo Fisher, CA, USA) purification.
RNA libraries were prepared for sequencing using standard Illumina protocols

Library strategy

RIP-Seq

Library source

transcriptomic

Library selection

other

Instrument model

Illumina NovaSeq 6000

Data processing

Fastq files for male and female mosquitoes were trimmed using Fastp software
RNA-seq data from control mRNA and m6A mRNA were mapped to Anopheles sinensis reference genome sequence (Version: v49) using HISAT2 package
Mapped reads of IP and input cDNA libraries from male and female mosquitoes were used to identify peaks by R package exomePeak
The m6A peaks were annotated using R package ChIPseeker and visualized using IGV software
The read counts per gene were then normalized to obtain FPKM values (total exon fragments /mapped reads (millions) × exon length (kB)) using StringTie
Genome_build: Anopheles sinensis reference genome sequence (Version: v49)
Supplementary_files_format_and_content: peak text files

Submission date

Jan 10, 2022

Last update date

May 18, 2022

Contact name

Congshan Liu

E-mail(s)

liucs@nipd.chinacdc.cn

Organization name

National Institute of Parasitic Diseases, Chinese Center for Disease Control and Prevention

Street address

207 Rui Jin Er Road