|
| Status |
Public on Dec 29, 2014 |
| Title |
70_D7 |
| Sample type |
SRA |
| |
|
| Source name |
PBMC
|
| Organism |
Macaca fascicularis |
| Characteristics |
immunization: ZEBOVgp
timepoint (days): day 7
outcome: survive
cell type: PBMC
|
| Growth protocol |
PBMCs
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen miRNeasy Isolation Kit from Trizol homogenates
Illumina mRNA
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Data processing |
Reads were basecalled using SCS version 2.9 software and processed using version CASAVA 1.8.2
zipped using gzip
For mRNAseq: Reads were mapped against the Macaca mulatta using Illumina's igenomes source Ensembl, Build: Mmul_1. The transcriptome was mapped using Bowtie/Tophat .
HTSeq was used to generate gene counts
Genome_build: Mmul_1
Supplementary_files_format_and_content: tab-delimited text files include: 1 scaled gene counts for each sample of mRNAseq
|
| |
|
| Submission date |
Dec 29, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Michael Katze |
| E-mail(s) |
data@viromics.washington.edu
|
| Organization name |
University of Washington
|
| Department |
Microbiology
|
| Lab |
Michael G. Katze, Ph.D
|
| Street address |
Rosen Building 960 Republican St.
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109-4325 |
| Country |
USA |
| |
|
| Platform ID |
GPL17720 |
| Series (1) |
| GSE64538 |
Next generation sequencing reveals a controlled immune response to Zaire Ebola virus challenge in cynomolgus macaques immunized with VSVΔG/ZEBOVgp |
|
| Relations |
| BioSample |
SAMN03273522 |
| SRA |
SRX824810 |
