|
| Status |
Public on Oct 01, 2019 |
| Title |
CLL3_DMSO |
| Sample type |
SRA |
| |
|
| Source name |
CLL cells
|
| Organism |
Homo sapiens |
| Characteristics |
subject id: 3
cell type: Isolated leukemic cells from patients with CLL
|
| Treatment protocol |
Isolated CLL cells were treated with 200 nM EC-7072 or vehicle (DMSO) for 6 hours
|
| Growth protocol |
Leukemic cells from patients with CLL were isolated and cultured in RPMI 1640 supplemented with 10% FBS, L-glutamine, sodium piruvate and penicillin/streptomycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from lysates using RNeasy kit (Qiagen)
Illumina TruSeq Stranded mRNA LT Sample Prep Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
7072_vs_DMSO.CLL3.xls
|
| Data processing |
Sequence quality was verified with FastQC (v 0.11.2)
Transcript abundance was directly quantified with Salmon (v 0.8.1)
Transcript-level quantifications were aggregated to gene-level abundance using DESeq2 (v 1.20.0).
Gene-level differential analysis was performed with DESeq2 (v 1.20.0). Applying a multifactor design for paired samples
Genome_build: Ensembl GRCh38 transcriptome
Supplementary_files_format_and_content: Processed files in Excel format that include mean expression and fold change values
|
| |
|
| Submission date |
Dec 13, 2018 |
| Last update date |
Oct 01, 2019 |
| Contact name |
Seila Lorenzo-Herrero |
| Organization name |
University of Oviedo
|
| Department |
Functional Biology
|
| Lab |
Tumor Immunology
|
| Street address |
Julian Claveria
|
| City |
Oviedo |
| State/province |
Asturias |
| ZIP/Postal code |
33006 |
| Country |
Spain |
| |
|
| Platform ID |
GPL20301 |
| Series (1) |
| GSE123777 |
The mithralog EC-7072 is highly cytotoxic to chronic lymphocytic leukemia cells by targeting the B-cell receptor signaling pathway |
|
| Relations |
| BioSample |
SAMN10588580 |
| SRA |
SRX5128189 |
