Gene Expression Nebulas
A data portal of transcriptomic profiles analyzed by a unified pipeline across multiple species

Gene Expression Nebulas

A data portal of transcriptome profiles across multiple species
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PRJNA565895

PRJNA565895: Single cell RNA sequencing revealed a chemokine self-feeding of myeloma cells for extramedullary metastasis

Source: NCBI / GSE137545
Submission Date: Sep 17 2019
Release Date: Sep 18 2019
Update Date: Dec 29 2019

Summary: To determine the mechanisms of the initial extramedullary translocation of myeloma cells from bone marrow into peripheral blood. We found that the clonal cPCs were more frequently detected by flowcytometry in extramedullary plasmacytoma patients and worsened their prognosis. It is technically much easier to collect single cPCs using FACS than it is to perform EMP biopsy. Combining imaging extramedullary plasmacytoma diagnosis and cPCs detection may be a promising strategy for prognostic stratification. Using single-cell transcriptome analysis, we found that CXCL12, a key molecule for the CXCR4-dependent cell retention mechanism in bone marrow, was abnormally up-regulated in cPCs and might initially enable cPCs evasion and translocation into blood.

Overall Design: We perform single cell RNA-seq using Smart-Seq2 for single myeloma cells derived from bone marrow of a patient with multiple myeloma.

GEN Datasets:
GEND000032
Strategy:
Species:
Tissue:
Healthy Condition:
Cell Type:
Protocol
Growth Protocol: -
Treatment Protocol: -
Extract Protocol: The Smartseq2 protocol was immediately performed to rescue mRNAs from cell lysate
Library Construction Protocol: Libraries were constructed with a Tn5-based TruePrep DNA Library Prep Kit (Vazyme Biotech, Nanjing, China) and were sequenced on the HiSeq 2500 platform (Illumina, USA).
Sequencing
Molecule Type: poly(A)+ RNA
Library Source:
Library Layout: PAIRED
Library Strand: -
Platform: ILLUMINA
Instrument Model: Illumina Genome Analyzer
Strand-Specific: Unspecific
Samples
Basic Information:
Sample Characteristic:
Biological Condition:
Experimental Variables:
Protocol:
Sequencing:
Assessing Quality:
Analysis:
Data Resource GEN Sample ID GEN Dataset ID Project ID BioProject ID Sample ID Sample Name BioSample ID Sample Accession Experiment Accession Release Date Submission Date Update Date Species Race Ethnicity Age Age Unit Gender Source Name Tissue Cell Type Cell Subtype Cell Line Disease Disease State Development Stage Mutation Phenotype Case Detail Control Detail Growth Protocol Treatment Protocol Extract Protocol Library Construction Protocol Molecule Type Library Layout Strand-Specific Library Strand Spike-In Strategy Platform Instrument Model Cell Number Reads Number Gbases AvgSpotLen1 AvgSpotLen2 Uniq Mapping Rate Multiple Mapping Rate Coverage Rate
Publications
Single-cell RNA sequencing reveals chemokine self-feeding of myeloma cells promotes extramedullary metastasis.
FEBS letters . 2019-10-17 [PMID: 31561267]