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Sample GSM5534697 Query DataSets for GSM5534697
Status Public on Dec 31, 2021
Title MET∆14Ex_HGF_24h_1
Sample type SRA
 
Source name NCI-H292 
Organism Homo sapiens
Characteristics genotype: METdelta14Ex
cell type: mucoepidermoid carcinoma cells
tissue: Lung
agent: HGF
Treatment protocol Following incubation in serum-free medium for 18h, the cells were treated with HGF (100 ng/mL) for 0, 6 and 24h.
Growth protocol NCI-H292 cells were maintained in RPMI 1640 medium supplemented with 10% FBS and 1× Antibiotic/Antimycotic (Thermo Fisher Scientific).
Extracted molecule total RNA
Extraction protocol The cells were collected and total RNA was extracted using an RNeasy mini kit (QIAGEN, CA). RNA libraries were prepared using QuantSeq 3' mRNA-Seq Library Prep Kit.
The RNA libraries were prepared using DNBseq RNA-seq protocol of BGI
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model MGISEQ-2000RS
 
Description 24h
Data processing RNA-seq was performed by DNBseq (MGISEQ-2000 PE150)
Sequence reads were aligned to human genome (GRCh38.primary_assembly.genome.fa and gencode.v30.primary_assembly.annotation.gtf) by STAR (v2.6.1b) with default parameters (--readFilesCommand zcat --twopassMode Basic --outFilterScoreMinOverLread 0 --outFilterMatchNminOverLread 0 --outFilterMultimapNmax 20 --outSAMtype BAM SortedByCoordinate)
The STAR output Bam files were called to raw counts by HTSeq (v0.6.1)
Genome_build: GRCh38
Supplementary_files_format_and_content: Raw counts
 
Submission date Aug 24, 2021
Last update date Dec 31, 2021
Contact name Feng Wang
E-mail(s) feng.wang.202108@gmail.com
Organization name albert einstein college of medicine
Street address 1300 Morris Park Ave
City Bronx
ZIP/Postal code 10461
Country USA
 
Platform ID GPL30209
Series (1)
GSE182684 Novel functional analysis of MET exon 14 skipping alteration in driving cancer invasion and metastatic dissemination
Relations
BioSample SAMN20960682
SRA SRX11896283

Supplementary file Size Download File type/resource
GSM5534697_METdelta14Ex_HGF_24h_1.counts.txt.gz 231.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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