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| Status |
Public on Feb 08, 2017 |
| Title |
TIME_Mock_2 |
| Sample type |
SRA |
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| Source name |
dermal microvasculature
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| Organism |
Homo sapiens |
| Characteristics |
cell type: hTert-immortalized microvascular endothelial cells
passage: 60 to 70
infection: mock
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the RNA isolation kit by Macherey-Nagel. Samples were cleaned and concentrated, where necessary, using Zymogen kit
RNA-seq libraries were generated using Illumina TruSeq RNA Sample Prep Kit v2 following the manufactures protocol.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
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| Description |
2014.11.04.TIME_KSHVvsTIME_Mock.txt
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| Data processing |
align reads, using TopHat v2.08b ( http://tophat.cbcb.umd.edu/ ) along with Bowtie 1.0.0 ( http://bowtie-bio.sourceforge.net/index.shtml ), using Ensembl's GRCh37 release 70 as the reference genome.
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| Submission date |
Jul 11, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Terri DiMaio |
| E-mail(s) |
tdimaio@uw.edu
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| Phone |
206-221-5693
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| Organization name |
University of Washington
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| Department |
Microbiology
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| Lab |
Lagunoff
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| Street address |
750 Republican St.
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| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
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| Platform ID |
GPL16791 |
| Series (1) |
| GSE84237 |
Integrated Systems Biology Analysis of KSHV Latent Infection Reveals Viral Induction and Reliance on Peroxisome Mediated Lipid Metabolism |
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| Relations |
| BioSample |
SAMN05371761 |
| SRA |
SRX1924987 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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