|
Status |
Public on Dec 31, 2021 |
Title |
MET_HGF_0h_3 |
Sample type |
SRA |
|
|
Source name |
NCI-H292
|
Organism |
Homo sapiens |
Characteristics |
genotype: WT 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 |
0h
|
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 |
SAMN20960669 |
SRA |
SRX11896270 |