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Sample GSM3602133 Query DataSets for GSM3602133
Status Public on Jul 22, 2020
Title Non-treat-2
Sample type SRA
 
Source name MM.1S, human cell line, peripheral blood
Organism Homo sapiens
Characteristics disease: multiple myeloma
genotype/variation: Wild type
treatment: Non-treated
Treatment protocol MM.1S cells were treated with 1 µM pomalidomide for 24, 48, or 72 hours. Alternatively, MM.1S cells were transduced with recombinant lentivirus expressing shRNA against ARID2 or Aiolos for 72 hours.
Growth protocol MM.1S cells were maintained in ATCC-formulated RPMI 1640 with 10% FBS and antibiotics.
Extracted molecule total RNA
Extraction protocol Total RNA was prepared using Sepasol-RNA I Super G (Nacalai Tesque) and then cleaned up using RNeasy mini kit (Qiagen).
The libraries were prepared using by TruSeq RNA Sample Prep Kit v2 (Illumina) according to the manufacturer’s instructions.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing The resulting reads were adapter-trimmed and mapped on hg38 using CLC Genomics Workbench version 11.0 (Qiagen). TPM was also calculated using CLC Genomics Workbench.
Genome_build: hg38
Supplementary_files_format_and_content: tab-delimited text files include TPM values of coding genes that expressed (TPM >0) in one or more samples.
 
Submission date Feb 12, 2019
Last update date Jul 22, 2020
Contact name Yuki Yamaguchi
E-mail(s) yyamaguc@bio.titech.ac.jp
Organization name Tokyo Institute of Technology
Department School of Life Science and Technology
Street address Nagatsutacho 4259
City Yokohama
ZIP/Postal code 226-8501
Country Japan
 
Platform ID GPL24676
Series (1)
GSE126463 mRNA-sequencing for MM.1S cells that were treated with pomalidomide or were expressing shRNA against ARID2 or Aiolos.
Relations
BioSample SAMN10921799
SRA SRX5369639

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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