 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Nov 19, 2024 |
| Title |
wild type, males, rep1 |
| Sample type |
SRA |
| |
|
| Source name |
first instar larvae
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: first instar larvae
Sex: male
genotype: wild type
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was isolated from Drosophila 1st instar male larvae with Trizol reagents (Invitrogen), treated with DNase I and purified with a ZYMO RNA Clean & Concentrator-5 kit.
polyA RNA was enriched with Oligo (dT) Magnetic Beads and reverse-transcripted to first strand DNA. First strand DNA was used as template to synthesis second strand DNA, obtaining dsDNA. The dTTP tailed adaptor was ligated to both ends of the dsDNA fragments. The ligation product was amplified by PCR, and circularized to get single-stranded circular (ssCir) library. The ssCir library was then amplified through rolling circle amplification (RCA) to obtain DNA nanoball (DNB). The DNB was then loaded to flow-cell, and sequenced by DNBSEQ Platform to generate 100 bp paired-end Reads.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
DNBSEQ-G400 |
| |
|
| Description |
WT_rep1
|
| Data processing |
RNA-seq reads were mapped to Drosophila genome dm6 with HISAT2 (v2.2.1).
Unmapped and low mapping quality reads were filtered with SAMtools (v1.13).
Read counts were calculated with HTSeq (v2.0.2).
Differential gene expression was analyzed with R package DESeq2.
Supplementary files format and content: tab-delimited text files include raw counts for each Sample
Supplementary files format and content: tab-delimited text file include FPKM values for each Sample
|
| |
|
| Submission date |
Nov 27, 2023 |
| Last update date |
Nov 19, 2024 |
| Contact name |
Qing Ma |
| Organization name |
Shenzhen Institutes of Advanced Technology
|
| Street address |
1068 Xueyuan Avenue, Shenzhen University Town, Shenzhen, P.R.China
|
| City |
Shenzhen |
| ZIP/Postal code |
518055 |
| Country |
China |
| |
|
| Platform ID |
GPL32218 |
| Series (2) |
| GSE248700 |
A noncanonical role of roX RNAs in autosomal epigenetic repression [RNA-seq] |
| GSE248701 |
A noncanonical role of roX RNAs in autosomal epigenetic repression |
|
| Relations |
| BioSample |
SAMN38452849 |
| SRA |
SRX22654300 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7918871_WT_rep1.count.txt.gz |
68.6 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
|
|
|
|
 |
