|
| Status |
Public on May 30, 2024 |
| Title |
LPKO_LCL_Re2 |
| Sample type |
SRA |
| |
|
| Source name |
LCL
|
| Organism |
Homo sapiens |
| Characteristics |
donor: Donor7
cell line: LCL
genotype: LPKO
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted using mini Rneasy kit (Qiagen 74104) including on-column DNase digestion
PolyA mRNA (E7490S) was isolated and libraries were made with the NEBNext Ultra II RNA Library Prep kit (E770S) and indexed (E7500S) following manufacturer's protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq X Plus |
| |
|
| Description |
LPKO_LCL_Rep2
|
| Data processing |
Aligned to Grch38 using Hisat2 to generate sam files
Sam files were sorted and converted to bam files using samtools
Read counts were extracted using featureCounts
Assembly: GRCh38/hg38
Supplementary files format and content: tab delimited text file containing raw counts from each sample
|
| |
|
| Submission date |
May 21, 2024 |
| Last update date |
May 30, 2024 |
| Contact name |
Jana Cable |
| E-mail(s) |
[email protected]
|
| Organization name |
Duke University
|
| Department |
Molecular Genetics and Microbiology
|
| Lab |
Luftig
|
| Street address |
213 Research Dr.
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27710 |
| Country |
USA |
| |
|
| Platform ID |
GPL34284 |
| Series (1) |
| GSE268054 |
Epstein-Barr virus protein EBNA-LP engages YY1 through [RNA-seq] leucine-rich motifs to promote naïve B cell transformation |
|
| Relations |
| BioSample |
SAMN41479653 |
| SRA |
SRX24634352 |
