|
| Status |
Public on Sep 12, 2017 |
| Title |
Y1.7-P-Cd45neg-3 |
| Sample type |
SRA |
| |
|
| Source name |
CD45- fraction of YUMM1.7 melanoma
|
| Organism |
Mus musculus |
| Characteristics |
tissue: YUMM1.7 melanoma tumor
mapki treatment: none
mapki type: none
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
QIAGEN RNeasy micro kit
TruSeq RNA Sample Preparation Kit v2, unstranded
Poly A transcript enrichment, paired end RNAseq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
Sorted CD45- cell fraction of YUMM1.7 melanoma tumor, pre BRAFi treatment, 3rd tumor
|
| Data processing |
FASTQ files were mapped by Tophat2
Tophat BAMs were quantified and normalized using Cuffnorm, DGE were called by cuffdiff
Genome_build: mm9
Supplementary_files_format_and_content: The normalized expression levels in FPKM called by cuffnorm
|
| |
|
| Submission date |
Sep 11, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Willy Hugo |
| E-mail(s) |
hwilly@mednet.ucla.edu
|
| Organization name |
UCLA
|
| Department |
Medicine
|
| Street address |
10833 Le Conte Ave, 52-121 CHS, Division of Dermatology
|
| City |
Los Angeles |
| State/province |
California |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL21493 |
| Series (1) |
| GSE103712 |
Expression changes in CD45neg subpopulation of YUMM1.7 melanoma pre MAPKi treatment vs. on MAPKi treatment [Y1.7.FPKM.batch3] |
|
| Relations |
| BioSample |
SAMN07629796 |
| SRA |
SRX3176873 |
