|
|
GEO help: Mouse over screen elements for information. |
|
Status |
Public on Apr 09, 2018 |
Title |
C_R3 |
Sample type |
SRA |
|
|
Source name |
Liver
|
Organism |
Gallus gallus |
Characteristics |
group: control liver phenotype: non-fatty liver Sex: male age: 36 week
|
Extracted molecule |
total RNA |
Extraction protocol |
Livers were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit v2 was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
HiSeq X Ten |
|
|
Data processing |
The sequenced data was filtered with the Sickle (https://github.com/najoshi/sickle) and SeqPrep (https://github.com/jstjohn/SeqPrep) software to remove the noise and low-quality sequences. The clean reads were mapped on the reference genome of Gallus_gallus_5.0. The expression abundance of the unigenes was calculated according to fragments per kilobase of exon per million (FPKM) fragments mapped. Differentially expressed genes (DEGs), with a false discovery rate (FDR) < 0.05, were selected as the criteria for significant differences. Genome_build: GCA_000002315.3 Supplementary_files_format_and_content: FPKM
|
|
|
Submission date |
Mar 15, 2018 |
Last update date |
Apr 09, 2018 |
Contact name |
yonghong zhang |
E-mail(s) |
yonghong@jlu.edu.cn
|
Organization name |
Jilin University
|
Street address |
No.2699 Qianjin Street
|
City |
Changchun |
State/province |
Jilin Province |
ZIP/Postal code |
130012 |
Country |
China |
|
|
Platform ID |
GPL24517 |
Series (1) |
GSE111909 |
Acquired paternal inheritance fatty liver transcriptomes induced by high-fat diet |
|
Relations |
BioSample |
SAMN08719877 |
SRA |
SRX3800308 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
|
|
|
|
|