|
| Status |
Public on Nov 20, 2020 |
| Title |
Total RNA-seq sgNSD3 Sample 2 |
| Sample type |
SRA |
| |
|
| Source name |
tumor-derived cells with sgNSD3
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: mouse tumor-derived cells
passages: 6-8
genotype/variation: sgNSD3
|
| Treatment protocol |
Mouse tumor-derived cells were treated with either control sgRNA or sgRNA against NSD3
|
| Growth protocol |
Mose tumor-derived cells were growed in DMEM media complemented with 10% FBS and 1% Pen-Strep on coated culture dishes. Cells were passaged at 1:8 ratio every 3 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mnase-digested DNA from specific antibody bound nucleosmes in native state were released by diffusion.
Libraries were prepared according to NEBNext Ultra II DNA Library Prep Kit for Illumina
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
DNBSEQ-G400 |
| |
|
| Description |
KO.1
|
| Data processing |
RNA-seq: Hisat2, FeatureCounts
Cut&Run Seq: CUT&RUNtools, ngs.plot
Genome_build: mm10
Supplementary_files_format_and_content: DESeq2_normalized_log2_exp.txt, cut_run_geneobody_peak_norm.txt
|
| |
|
| Submission date |
Apr 28, 2020 |
| Last update date |
Nov 20, 2020 |
| Contact name |
Ning-Yi Shao |
| Organization name |
University of Macau
|
| Street address |
E12-3009, University of Macau
|
| City |
Macau |
| ZIP/Postal code |
999078 |
| Country |
China |
| |
|
| Platform ID |
GPL28457 |
| Series (1) |
| GSE149482 |
Genome-wide maps of histone modifications in mouse tumor-derived cell lines |
|
| Relations |
| BioSample |
SAMN14752696 |
| SRA |
SRX8188419 |
