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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jul 14, 2023 |
| Title |
BM-MSC-2 |
| Sample type |
SRA |
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| Source name |
mesenchymal stem cells
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| Organism |
Homo sapiens |
| Characteristics |
cell type: mesenchymal stem cells
treatment: non differentiation
time: Day 0
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent (Invitrogen). 500 ng of total RNA was used for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using LEXOGEN Quant-Seq Library Prep Kit (Cat#001.24) standard protocols.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
Illumina Casava1.8 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence(using fastx_trimmer), then mapped to hg19 (UCSC) whole genome using Bowtie2
Read count extraction using bedtools.
Assembly: hg19
Supplementary files format and content: tab-delimited text files include read count values for each Sample
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| Submission date |
Apr 18, 2023 |
| Last update date |
Jul 14, 2023 |
| Contact name |
Hyun-Ju An |
| E-mail(s) |
yks486ahj@naver.com
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| Organization name |
CHA university
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| Street address |
Seongnam-si, 13496
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| City |
Seongnam |
| State/province |
--- Select One --- |
| ZIP/Postal code |
13496 |
| Country |
South Korea |
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| Platform ID |
GPL18573 |
| Series (1) |
| GSE229945 |
Fetal mesenchymal stem cells promote osteogenesis via Notch signaling |
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| Relations |
| BioSample |
SAMN34232887 |
| SRA |
SRX20000335 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7181678_BM-MSC-2.txt.gz |
120.0 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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