|
| Status |
Public on Apr 19, 2022 |
| Title |
RSG08 |
| Sample type |
SRA |
| |
|
| Source name |
B16 melanoma
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: B16 melanocytes
pigmentation state: D3
replicate: D3_rep2
|
| Treatment protocol |
No treatment is given. D3 -D7 cells are harvested to capture transition from depigmented to pigmented state
|
| Growth protocol |
B16 cells are cultured at a density of 100 cells/sq.cm in DMEM-high glucose and cultured for 7 days in same media.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Macherey-Nagel RNA isolation kit protocol is used
RNA libraries were prepared for sequencing using standard Illumina protocols
TruSeq RNA Sample Prep Kit v2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Quality check FastQC -0.11.5
Pre-processing to remove adaptor sequence Cutadapt - 0.11.5
Alignment HISAT2-2.0.4
Quantification Htseq-0.11.1
Normalised counts were generated using DESeq2
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include normalized count values for each Sample ...
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Jan 07, 2021 |
| Last update date |
Apr 19, 2022 |
| Contact name |
Vivek T Natarajan |
| E-mail(s) |
tnvivek@igib.in
|
| Organization name |
CSIR-IGIB
|
| Lab |
Pigment Cell Biology Lab
|
| Street address |
Mathura Road
|
| City |
Delhi |
| State/province |
Delhi |
| ZIP/Postal code |
110025 |
| Country |
India |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE164375 |
Srebf1-mediated fatty acid metabolism is crucial to sustain sugmented pigmentation SREBF1-mediated metabolic reprogramming through fatty acid metabolism sustains augmented melanogenesis |
|
| Relations |
| BioSample |
SAMN17248562 |
| SRA |
SRX9799580 |
