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Sample GSM4891990 Query DataSets for GSM4891990
Status Public on Nov 10, 2023
Title B16_Ctrl_Veh_rep1
Sample type SRA
 
Source name murine melanoma
Organism Mus musculus
Characteristics cell type: B16F10
genotype: Ctrl
activation?: NA
treatment: DMSO
Treatment protocol For drug treatment, DMSO or thapsigargin (50ng/mL) was added to the culture where indicated. For activation, a 24-well non-tissue-culture-treated plate was coated with anti-CD3 antibodies overnight and on the day of the experiment, cells were seeded on this plate at a density of 1*10^6/mL where indicated.
Growth protocol B16F10 were maintained in DMEM/10%FCS/Penicillin (100U/mL)/Streptomycin (100ug/mL)/Puromycin (1ug/mL) and passaged 1:10 every two days. T cells were maintained in RPMI/10%FCS/Penicillin (100U/mL)/Streptomycin (100ug/mL) with IL-2 (10ng/mL), IL-7 (0.5ng/mL), IL-15 (1ng/mL), betamercaptoethanol (50uM) and puromycin (4ug/mL) and passaged every day at a density of 1*10^6/mL.
Extracted molecule total RNA
Extraction protocol RNA was extracted using Trizol.
RNA libraries were prepared for sequencing using standard Illumina protocols.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description replicate 1
5894_1_B16_Ctrl_Veh_rep1_CGATGTA_S14_R1_001
Data processing Sequence samples were mapped to the mouse genome (GRCm38) using STAR(2.6.0c) using 2-pass mapping with default settings. Sequence reads were counted using HTSeq-count.
Genome_build: mm10
Supplementary_files_format_and_content: Un-processed read count data
 
Submission date Nov 10, 2020
Last update date Nov 10, 2023
Contact name Oscar Krijgsman
E-mail(s) o.krijgsman@nki.nl, oscarkrijgsman@gmail.com
Phone 31205122028
Organization name Netherlands Cancer Institute
Department Molecular Oncology and Immunology
Lab Peeper
Street address Plesmanlaan 121
City Amsterdam
State/province Outside the US or Canada
ZIP/Postal code 1066CX
Country Netherlands
 
Platform ID GPL17021
Series (1)
GSE161209 Serca2b inhibition aids T cell activation and selectively promotes tumor cell death
Relations
BioSample SAMN16728085
SRA SRX9470978

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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