NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM5709075 Query DataSets for GSM5709075
Status Public on Dec 09, 2022
Title MOLM-13_SETD1AKO_FKBP-SETD1A_H7_dTAG13_d1_exp2
Sample type SRA
 
Source name MOLM-13
Organism Homo sapiens
Characteristics stimulation: dTAG-13
time: 24h
cell line: MOLM-13
Treatment protocol HA-FKBP-hSETD1A expression vector, Cas9 expression vector and SETD1A sgRNA expression vector were introduced with lentivirus and stable expressing single cell clone was established. Cells were treated with DMSO or 500 nM dTAG-13 for 24 or 96 hours.
Growth protocol MOLM-13 cells and MV4-11 cells were cultured in RPMI-1640 containing penicillin-streptomycin, supplemented with 10% fetal bovine serum.
Extracted molecule total RNA
Extraction protocol Total RNA was collected using Rneasy Mini Kit with DNase (QIAGEN)
Libraries for RNA-seq were prepared using the TruSeq Stranded mRNA Sample Prep Kit (Illumina).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description Sample 6
Data processing BCL2FASTQ version2.20.0 software was used for basecalling.
Read were aligned with HISAT v2.1.0.
Fragments per kilobase of exon model per million mapped fragments (FPKM) were calculated using Cufflinks v2.2.1. Command line options for cufflinks were '--max-bundle-flags 4000000' for RNA-seq
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample.
 
Submission date Nov 30, 2021
Last update date Dec 09, 2022
Contact name Masaki Fukuyo
E-mail(s) fukuyo@chiba-u.jp
Organization name Chiba University
Department Department of Molecular Oncology
Street address 1-8-1 Inohana, Chuo-ku
City Chiba
ZIP/Postal code 260-8670
Country Japan
 
Platform ID GPL18573
Series (2)
GSE189893 SETD1A regulates transcriptional pause release of heme biosynthesis genes in leukemia [RNA-seq]
GSE189894 SETD1A regulates transcriptional pause release of heme biosynthesis genes in leukemia
Relations
BioSample SAMN23520974
SRA SRX13262949

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap