SAMN18647684
External Id
University of Nebraska at Omaha
INSDC center name
2022-09-01T01:30:59.700Z
INSDC first public
2022-09-01T01:30:59.700Z
INSDC last update
SRS8655165
INSDC secondary accession
live
INSDC status
Model organism or animal
NCBI submission model
Model.organism.animal.1.0
NCBI submission package
SRS8655165
SRA accession
IEC4.1
cell_line
Intestinal epithelial cells
cell_type
Total RNA was isolated from cells with TRAZOL Reagent (Invitrogen). 1ug RNA was used to construct libraries with TruSeq Stranded total RNA Library Prep Kit (Illumina, San Diego, CA) and the residual RNA was used for RNA-seq. Sequencing was carried out on Illumina HiSeq 4000 according to the manufacturer’s instructions with single-end 50-bp read length. BGI SOAPnuke v1.5.2 software used for basecalling. Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm10 whole genome. Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009.
description
RNA-Seq-CP-3
isolate
Mus musculus
http://purl.obolibrary.org/obo/NCBITaxon_10090
organism
Cell culture
sample_type
BALB/c
strain
Intetinal epithelial cells
tissue
RNA-Seq-CP-3
title
The IEC 4.1 murine intestinal epithelial cells were grown to 80% confluence for two groups: non-infected control (Ctrl) and Cryptosporidium parvum (CP)-infected group. Cells for CP infection were exposed to C. parvum infection for 24h. Cells were then collected and RNA isolated for RNA-Seq analysis.
treatment