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| Status |
Public on Oct 18, 2022 |
| Title |
head, 5-days flies, ancestors exposed in high sugar diet [F1_3] |
| Sample type |
SRA |
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| Source name |
head
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| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: head
age: 5-days flies
genotype: W+VDRC
treatment: the flies' mother fed with high sugar diet (contains 20% sucrose) from egg to adult
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol. >1.0 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared following RNA-Seq Library Preparation Protocol (DNBSEQ).mRNA molecules were purified from total RNA using oligo(dT)-attached magnetic beads.PCR products were purified with Ampure XP Beads (AGENCOURT).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
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| Data processing |
The sequencing data was filtered with SOAPnuke (v1.5.2)
Removing reads containing sequencing adapter
Removing reads whose unknown base ('N' base) ratio is more than 5%, afterwards clean reads were obtained and stored in FASTQ format. The clean reads were mapped to the reference genome using HISAT2 (v2.0.4)
Bowtie2 (v2.2.5) was applied to align the clean reads to the gene set, a database for this organism built by BGI (Beijing Genomic Institute in ShenZhen), which known and novel, coding transcripts were included, then expression level of gene was calculated by RSEM (v1.2.12)
Differential expression analysis was performed using the DESeq2(v1.4.5) with Q value ≤ 0.05.
Assembly: Dm6
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
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| Submission date |
Oct 14, 2022 |
| Last update date |
Oct 19, 2022 |
| Contact name |
JIE YANG |
| E-mail(s) |
11807048@zju.edu.cn
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| Phone |
13175065330
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| Organization name |
ZheJiang Univeristy
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| Department |
science life institute
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| Lab |
wanglab
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| Street address |
Yuhangtang Road No.388,Zhejiang Province, Zijingang Campus of Zhejiang University, nano building 560 room
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| City |
hangzhou |
| State/province |
ZheJiang |
| ZIP/Postal code |
310058 |
| Country |
China |
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| Platform ID |
GPL26560 |
| Series (2) |
| GSE215756 |
Histone methylation mediates transgenerational modulations of sweet perception by high sugar diet [RNA-Seq] |
| GSE216076 |
Histone methylation mediates transgenerational modulations of sweet perception by high sugar diet |
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| Relations |
| BioSample |
SAMN31280964 |
| SRA |
SRX17889267 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6638242_H_F1_3.txt.gz |
848.6 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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