|
| Status |
Public on Apr 06, 2019 |
| Title |
EBV-Rest B cell-d21-Donor3 |
| Sample type |
SRA |
| |
|
| Source name |
Primary resting B cells
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Blood
stages: Primary culture
cell type: Primary B cell
|
| Growth protocol |
Primary resting B Cells were rountinly cultured in RPMI1640 supplemented with 10% FCS.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA were extracted with Rneasy Mini Kit from Qiagen
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
day 21
|
| Data processing |
Read counts of GENCODE v28 genes and EBV genes were calculated using salmon 0.8.2 based on transcriptome
Log transformed and variance stabilized gene read counts were extracted using DESeq2
Genome_build: hg19
Supplementary_files_format_and_content: matrix of normalized gene read counts
|
| |
|
| Submission date |
Jan 31, 2019 |
| Last update date |
Apr 06, 2019 |
| Contact name |
Mingxiang Teng |
| E-mail(s) |
mingxiang.teng@moffitt.org
|
| Organization name |
H Lee Moffitt Cancer Center and Research Institute
|
| Department |
Department of Biostatistics and Bioinformatics
|
| Street address |
12902 Magnolia Dr
|
| City |
Tampa |
| State/province |
FL |
| ZIP/Postal code |
33612 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE125974 |
RNA-seq analysis of EBV transformation of primary resting B cells |
|
| Relations |
| BioSample |
SAMN10854730 |
| SRA |
SRX5318326 |
