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Sample GSM6454618 Query DataSets for GSM6454618
Status Public on Jun 09, 2023
Title t651L_sgKdm6a RPP
Sample type SRA
 
Source name mouse small cell lung cancer (SCLC) tumor
Organism Mus musculus
Characteristics tissue: mouse small cell lung cancer (SCLC) tumor
cell type: mouse small cell lung cancer tumor cells
mouse background: pure congenic Lox-stop-lox (LSL) Cas9 BL6J mice
genotype: sgKdm6a RPP
Treatment protocol No treatment
Growth protocol SCLC tumors were harvested at necropsy and were flash-frozen
Extracted molecule total RNA
Extraction protocol RNA was extracted using RNeasy mini kit (Qiagen #74106) including a DNase digestion step according to the manufacturer’s instructions and RNA sequencing was performed
The libraries for RNA-seq are prepared using NEBNext Ultra II non-stranded kit. Paired end 150bp sequencing was performed on Novaseq6000 sequencer using S4 flow cell.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description t651L
Data processing Sequencing reads were mapped to the mm10 genome by STAR. Statistics for differentially expressed genes were calculated by DESeq2.
Assembly: mm10
Supplementary files format and content: FPKM and read count
 
Submission date Aug 12, 2022
Last update date Jun 09, 2023
Contact name Leslie Duplaquet
E-mail(s) leslie_duplaquet@dfci.harvard.edu
Organization name DFCI
Department Medical Oncology
Lab Oser Lab
Street address 360 Longwood Ave
City Boston
State/province Massachusetts
ZIP/Postal code 02215
Country USA
 
Platform ID GPL24247
Series (2)
GSE211160 Small Cell Lung Cancer Subtype Plasticity is Regulated by KDM6A/UTX [RNA-Seq]
GSE228347 KDM6A Epigenetically Regulates Subtype Plasticity in Small Cell Lung Cancer
Relations
BioSample SAMN30286878
SRA SRX17046031

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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