|
| Status |
Public on Aug 01, 2021 |
| Title |
TCL rep3 |
| Sample type |
SRA |
| |
|
| Source name |
BM DCs
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: bone arrow
cell type: dendritic cells
disease state: TCL (murine CLL)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
BM cell were isolated from mice then sorted by flow cytometry sorter according to DCs markers
Inhouse poly A based RNA seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads were trimmed using cutadapt
After trimming the reads were mapped to the mouse genome using STAR v2.4.2a (using options outFilterMismatchNmax 2 and alignEndsType EndToEnd)
Counting proceeded over mouse RefSeq genes using htseq-count
Normalization was performed using DESeq2
Genome_build: mm10
Supplementary_files_format_and_content: Excel file includes the normalized counts and DESeq2 output
|
| |
|
| Submission date |
Aug 28, 2018 |
| Last update date |
Aug 01, 2021 |
| Contact name |
Gilgi Friedlander |
| Organization name |
Weizmann Institute of Science
|
| Street address |
Hertzel st
|
| City |
Rehovot |
| ZIP/Postal code |
76100 |
| Country |
Israel |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE119115 |
Unveiling key players in the Chronic Lymphocytic Leukemia (CLL)-microenvironment interplay |
|
| Relations |
| BioSample |
SAMN09927109 |
| SRA |
SRX4616104 |
