|
Status |
Public on Feb 13, 2022 |
Title |
RNA_MM1S_TSW1 |
Sample type |
SRA |
|
|
Source name |
Cell line derived from human plasma cell myelom
|
Organism |
Homo sapiens |
Characteristics |
cell line: MM.1S (ATCC, CRL-2974) cell type: Human myeloma cell line culture condition: in the upper transwell from a transwell coculture with HS5 repeat: r1
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was isolated from approximately 10^5 sorted cells for each sample using Qi-agen kit (RNeasy Plus Mini Kit, 74134) according to manufacturer’s instructions. 250-500ng of total RNA was used for each sample as a starting material for RNA-Seq library prep using KAPA mRNA HyperPrep Kit (Roche Diagnostics, 08098123702) according to manufacturer’s instruction.
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
NextSeq 2000 |
|
|
Data processing |
Reads were aligned to mouse genome (hg38) with subread-align version 2.0.1 (PMID: 23558742) Read counts were calculated with the featureCounts function from Rsubread version 2.0.1 (PMID: 24227677) against RefSeq gene annotation Gene expression level from RNA-Seq is measured by RPKM (PMID: 18516045) with an in-house script. Genome_build: hg38 Supplementary_files_format_and_content: Txt file, from left to right represent entrz ID, gene symbol, and gene expression values in log2(RPKM+1) for each samples.
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|
|
Submission date |
Jan 13, 2022 |
Last update date |
Feb 13, 2022 |
Contact name |
Gangqing Hu |
E-mail(s) |
michael.hu@hsc.wvu.edu
|
Organization name |
West Virginia University
|
Department |
MicroBiology, Immunology, and Cell Biology
|
Lab |
2072A, HSC North, Floor 2
|
Street address |
64 Medical Center Drive
|
City |
Morgantown |
State/province |
West Virginia |
ZIP/Postal code |
26506-9177 |
Country |
USA |
|
|
Platform ID |
GPL30173 |
Series (2) |
GSE193656 |
Bone Marrow Stroma-induced Transcriptome and Regulome Signatures of Multiple Myeloma [RNA-seq] |
GSE193658 |
Bone Marrow Stroma-induced Transcriptome and Regulome Signatures of Multiple Myeloma |
|
Relations |
BioSample |
SAMN25026071 |
SRA |
SRX13799875 |