|
| Status |
Public on May 21, 2015 |
| Title |
RNA-seq of control Mutu cells_1 |
| Sample type |
SRA |
| |
|
| Source name |
EBV-infected B cells
|
| Organism |
human gammaherpesvirus 4 |
| Characteristics |
host organism: homo sapiens
host cell line: Mutu
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using TRIzol® Reagent (Life technologies, Cat. #15596-018) or a miRNeasy Mini Kit (Qiagen, Cat. #217004) following the respective vendor’s protocols.
Truseq strand specific protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
FASTQ files were aligned to human reference genome hg19 and Akata EBV genome using the sequence and junction aligner, TopHat
Strand specific gene expression was quantified by SAMMate
Genome_build: hg19 and Akata EBV genome
Supplementary_files_format_and_content: Excel file include RPKM values of EBV genes for each sample
|
| |
|
| Submission date |
Apr 21, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Erik K Flemington |
| Organization name |
Tulane University
|
| Department |
Tulane Cancer Center/Pathology and Laboratory Medicine
|
| Lab |
8th Floor LCRC
|
| Street address |
1430 Tulane Avenue, SL-79
|
| City |
New Orleans |
| State/province |
Louisiana |
| ZIP/Postal code |
70112 |
| Country |
USA |
| |
|
| Platform ID |
GPL20090 |
| Series (1) |
| GSE68122 |
New non-coding lytic transcripts derived from the Epstein Barr virus latency origin of replication oriP are hyper-edited, bind the paraspeckle protein, NONO/p54nrb, and support lytic viral transcription |
|
| Relations |
| SRA |
SRX1003108 |
| BioSample |
SAMN03497731 |
