ERC000011
ENA-CHECKLIST
2023-12-01T00:42:40Z
ENA-FIRST-PUBLIC
2023-12-01T00:42:40Z
ENA-LAST-UPDATE
SAMEA113601485
External Id
PhD fellow, Norwegian University of Life science
INSDC center name
2023-12-01T00:42:40Z
INSDC first public
2023-12-01T00:42:40Z
INSDC last update
public
INSDC status
ERS15595866
SRA accession
E-MTAB-13068:KO_All_IFNα_ISAV_SHK-1
Submitter Id
ArrayExpress
broker name
SHK-1
cell_line
not collected
collection date
Atlantic salmon
common name
Protocols: RNA seq analysis was conducted on IFNα_ISAV/ IFNα_IPNV (n=4) treatment groups at 2 hours post-infection and results were compared with wild SHK-1 cells (n=4). For Knock out (KO) experiment, IFNα_ISAV/ IFNα_IPNV (n=4) treatment groups at 2 hours post-infection were used as control and below KO groups were used as treatment groups. The number of each group was mentioned in brackets. KO_CRFB1a_IFNα_ISAV_SHK-1 (n=3) KO_CRFB5a_IFNα_ISAV_SHK_1 (n=3) KO_I10R2_IFNα_ISAV_SHK-1 (n=2) KO_I10Rb_IFNα_ISAV_SHK-1 (n=3) KO_IFNGR2b_IFNα_ISAV_SHK-1 (n=3) KO_CRFB1a_IFNα_IPNV_SHK-1 (n=3) KO_CRFB5a_IFNα_IPNV_SHK_1 (n=3) KO_I10R2_IFNα_IPNV_SHK-1 (n=2) KO_IFNGR2b_IFNα_IPNV_SHK-1 (n=3) KO_I10Rb_IFNα_IPNV_SHK-1 (n=3) KO_All_IFNα_ISAV_SHK-1 (n=2) KO_All_IFNα_IPNV_SHK-1 (n=2) Total RNA was extracted from collected cells by using the Direct-zol RNA Microprep Kits (Zymo) using the manufacturer’s protocol. The RNA purity was measured using a Tape station, and the RNA concentration was determined using spectrophotometry (Nanodrop ND1000). Novogene mRNA-seq Services did library preparation. Briefly, the library is prepared according to Salmo salar, and subsequently tested for its quality (Library QC).
description
CRFB1a, CRFB5a, I10R2, IFNGR2b, I10Rb and IFNGR2b knockout
genotype
not collected
geographic location (country and/or sea)
infectious salmon anemia virus
infect
not applicable
isolate
Salmo salar
organism
Salmo salar
organism
head kidney
organism part
Salmo salar
scientific_name
IFNα
stimulus
KO_All_IFNα_ISAV_SHK-1
title