|
| Status |
Public on Dec 31, 2022 |
| Title |
IEL-NK cells, Control_1 |
| Sample type |
SRA |
| |
|
| Source name |
CD3-, 28.4+ IEL-NK cells isolated from duodenum
|
| Organism |
Gallus gallus |
| Characteristics |
tissue: Duodenum
cell type: CD3-, 28.4+ IEL-NK cells
infection: uninfected
time: control
|
| Treatment protocol |
infected by vvIBDV (UPM0081) at a dosage of 10e3 EID50/0.1ml
|
| Growth protocol |
specific-pathogen-free (SPF) embryonated chicken eggs were obtained from Veterinary Research Institute, Ipoh, Perak and hatched in our laboratory under sterile conditions. The chicken was transferred to the Biosafety level-2 facility at our animal house where they were fed with pelleted feed and supplied with water ad libitum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from enriched IEL-NK cells using the trizol reagent.
The total RNA sample was proceeded to the library prep using the TruSeq small RNA library prep kit
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Fastq files were generated from BCL files using the MiSeq reporter
the fastq files were loaded inside the CLC Genomics Workbench for quality and adapter trimming
the filtered fastq files were proceeded for alignment to chicken genome and microRNA database using Oasis analysis platform v2.0
The differential expression analysis was conducted to find out the DE genes
Genome_build: Galgal4_ensembl, miRBase ver. 21 (released date: June 2014)
Supplementary_files_format_and_content: Read counts and expression value
|
| |
|
| Submission date |
Apr 16, 2020 |
| Last update date |
Dec 31, 2022 |
| Contact name |
Boo Sook Yee |
| E-mail(s) |
rinoa1685@gmail.com
|
| Phone |
+60128319568
|
| Organization name |
Universiti Putra Malaysia
|
| Department |
Institute of Bioscience
|
| Lab |
Laboratory of Vaccine & Immunotherapeutics
|
| Street address |
Universiti Putra Malaysia
|
| City |
Serdang |
| State/province |
Selangor |
| ZIP/Postal code |
43400 |
| Country |
Malaysia |
| |
|
| Platform ID |
GPL19064 |
| Series (1) |
| GSE148772 |
microRNA Expression Study of chicken CD3-28-4+ intraepithelial lymphocyte natural killer cells infected with very virulent Infectious Bursal Disease Virus |
|
| Relations |
| BioSample |
SAMN14604886 |
| SRA |
SRX8122800 |
