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Sample GSM4171603 Query DataSets for GSM4171603
Status Public on Feb 04, 2020
Title Adam10_Het_Tumor_Rep2
Sample type SRA
 
Source name CD104+ SCC Tumors
Organism Mus musculus
Characteristics cell type: Primary tumor cells
marker: CD104+
Extracted molecule total RNA
Extraction protocol Zymoresearch RNA Extraction Kit.
RNA libraries were prepared for sequencing using standard Illumina protocols.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description processed data file: Tumors_Adam10_KO_deseq2.xlsx
Data processing Reads were aligned to mm10 using Hisat2 (2.1.0).
Raw reads obtained from bam files using featureCounts and mm10 annotation file from Ensembl (Mus_musculus.GRCm38.94.gtf).
DESeq2 package in R was used to determine differentially expressed genes between samples.
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: *_deseq2.xlsx: Differential gene expression analysis
 
Submission date Nov 15, 2019
Last update date Feb 04, 2020
Contact name Daniel Schramek
E-mail(s) schramek@lunenfeld.ca
Organization name Lunenfeld- Tanenbaum Research Institute
Lab Schramek Lab
Street address 600 University Ave, Room 1080
City Toronto
State/province ON
ZIP/Postal code M5G 1X5
Country Canada
 
Platform ID GPL19057
Series (2)
GSE140495 In vivo CRISPR screens reveal NOTCH regulators suppressing Head and Neck Squamous Cell Carcinoma in mice [RNA-seq]
GSE140497 In vivo CRISPR screens reveal NOTCH regulators suppressing Head and Neck Squamous Cell Carcinoma in mice
Relations
BioSample SAMN13293632
SRA SRX7157614

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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