|
| Status |
Public on Apr 28, 2018 |
| Title |
yfp_6555c3_no2 |
| Sample type |
SRA |
| |
|
| Source name |
sorted T cell high tumor cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
sample type: sorted tumor cells
t cell phenotype: high
|
| Treatment protocol |
no treatment administrated
|
| Growth protocol |
T cell low or high pancreatic tumor cells were subcutaneously implanted into C57BL/6 mice. Sorted tumor cell samples were prepared from tumors 3 weeks following implantation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using Qiagen Rneasy Micro Kit.
500 ng of total RNA was used for the preparation of sequencing libraries using NEB RNA-seq library preparation kit with standard protocol. RNA-seq libraries were sequenced on an Illumina Nextseq 550 high-throughput sequencer.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Data processing |
Alignment using STAR aligner with default settings
Raw counts calling using featureCounts
Genome_build: mm10
Supplementary_files_format_and_content: text file including raw counts of each gene for all samples
|
| |
|
| Submission date |
Jan 31, 2018 |
| Last update date |
Apr 28, 2018 |
| Contact name |
Jinyang Li |
| E-mail(s) |
jli05@rockefeller.edu
|
| Phone |
2155885072
|
| Organization name |
The Rockefeller University
|
| Lab |
Daniel Mucida Lab
|
| Street address |
1230 York Ave
|
| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL21626 |
| Series (2) |
| GSE109933 |
Transcriptional profiling of sorted tumor cells from implanted T cell low and T cell high mouse pancreatic tumors |
| GSE109972 |
RNA-seq and ATAC-seq profiling of T cell low and T cell high mouse pancreatic tumors |
|
| Relations |
| BioSample |
SAMN08446897 |
| SRA |
SRX3635409 |
