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| Status |
Public on Sep 30, 2019 |
| Title |
RNA-seq of healthy CD34+ HSPCs after co-culture with myelodyplastic syndrome patient-derived mesenchymal stromal cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Cytopenia in at least one of the hematopoietic lineages (RBCs, WBCs or platelets) is a hallmark feature of MDS, indicating the lack of ability to support HSPC proliferation and the retention of their multilineage potential in the bone marrow. Here, wel investigate MDS-MSCs (with and without 5-azacitidine pre-treatment) as feeder layers for healthy CD34+ HSPCs. We performed RNA sequencing of co-cultured CD34+ HSPCs to compare their transcriptomic signatures after exposure to treated vs untreated MDS-MSCs.
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| Overall design |
5-azacitidine treated or MDS-MSCs were plated at a near confluent density of 2.0 × 104 cells/cm2 in DMEM with 10% FBS. 24 h later, healthy CD34+ HSPCs were seeded in contact with the MSC feeder layer at a density of 2.0 × 103 cells/cm2 in hematopoietic media and cultured for 14-21 days with replacement of media after 7 days. On the last day, CD34+ HSPCs were sorted for RNA extraction and subsequent sequencing.
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| Contributor(s) |
Poon Z, William H |
| Citation missing |
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| Submission date |
Sep 13, 2018 |
| Last update date |
Sep 30, 2019 |
| Contact name |
Zhiyong Poon |
| E-mail(s) |
poon.zhi.yong@sgh.com.sg
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| Organization name |
Singapore General Hospital
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| Street address |
20 College Road
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| City |
Singapore |
| ZIP/Postal code |
169856 |
| Country |
Singapore |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (9)
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| GSM3387235 |
CD34+ selected HSPCs from MDS-MSC 261 UT co-culture |
| GSM3387236 |
CD34+ selected HSPCs from MDS-MSC 325 UT co-culture |
| GSM3387237 |
CD34+ selected HSPCs from MDS-MSC 613 UT co-culture |
| GSM3387238 |
CD34+ selected HSPCs from MDS-MSC 627 UT co-culture |
| GSM3387239 |
CD34+ selected HSPCs from MDS-MSC 775 UT co-culture |
| GSM3387240 |
CD34+ selected HSPCs from MDS-MSC 261 AZA co-culture |
| GSM3387241 |
CD34+ selected HSPCs from MDS-MSC 613 AZA co-culture |
| GSM3387242 |
CD34+ selected HSPCs from MDS-MSC 627 AZA co-culture |
| GSM3387243 |
CD34+ selected HSPCs from MDS-MSC 775 AZA co-culture |
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| Relations |
| BioProject |
PRJNA490690 |
| SRA |
SRP161687 |
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