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| Status |
Public on Jan 31, 2024 |
| Title |
MM-10 |
| Sample type |
SRA |
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| Source name |
Bone marrow
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| Organism |
Homo sapiens |
| Characteristics |
tissue source: Posterior iliac crest
cell type: Primary, freshly isolated, uncultured BMSC
processing: Lineage depleted, FACS sorted
disease: Multiple myeloma
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| Extracted molecule |
total RNA |
| Extraction protocol |
BM mononucleated cells (MNC) were freshly-isolated by lineage depletion with RosetteSep Human MSC Enrichment Cocktail and density gradient centrifugation. PharmLyse was used to eliminate residual erythrocytes. Cell were stained with monoclonal antibodies and FACS populations of lin-CD45-CD71-CD235a-CD31-CD271+ were directly sorted into Arcturus PicoPure RNA lysis buffer.
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Data processing |
Reads were mapped to the hg38 genome using HiSat2 2.0.4
Transcripts were counted against the GenCode annotation using the Rsubread package for R
Genome_build: hg38
Supplementary_files_format_and_content: Text file containing the gene name and raw count value
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| Submission date |
Apr 15, 2019 |
| Last update date |
Jan 31, 2024 |
| Contact name |
Shamit Soneji |
| Organization name |
BMC
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| Street address |
Solvegatan 19
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| City |
Lund |
| ZIP/Postal code |
22184 |
| Country |
Sweden |
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| Platform ID |
GPL11154 |
| Series (1) |
| GSE129801 |
Primary bone marrow stromal cells in plasma cell disorders |
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| Relations |
| BioSample |
SAMN11417422 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3722292_P.MSC070_S8_counts.txt.gz |
139.5 Kb |
(ftp)(http) |
TXT |
| Processed data provided as supplementary file |
| Raw data not provided for this record |
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