|Public on Jun 10, 2014
|MRC5 Cell Line
|cell line: MRC5
|RNA was isolated at 24 and 48 hours post infection at an MOI of 0.1 and 3 with each virus.
|MRC5 cells were grown in MEM with 10% Fetal Bovine Serum
|RNA was extracted using Trizol from cells infected in culture.
Poly-A RNA was isolated and indexed libraries were prepared for sequencing using standard Illumina protocols.
|Illumina HiSeq 2500
|Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Homo sapiens whole genome reference build GRCh37.74 using bowtie v0.12.9 with parameters -q -p 4 -e 100 -y -a -m 10 --best --strata
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library.
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each sample
|May 16, 2014
|Last update date
|May 15, 2019
|David A Rasko
|410 706 6774
|University of Maryland School of Medicine
|Istitute for Genome Sciences/Microbiology and Immunology
|801 W. Baltimore Street, Room 619
|Transcriptomic Analysis Of The Novel Middle East Respiratory Syndrome Coronavirus (MERS-CoV)
|Transcriptomic analysis of the Novel Middle East Respiratory Syndrome Coronavirus (Human, MRC5 cells)