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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 29, 2024 |
| Title |
Gene expression profile at single cell level of phenotypic LT-HSCs from single-mutant JAK2 V617F and double mutant JAK2 V617F;Dnmt3a-/- mice |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We investigated if Dnmt3a loss leads to alterations in JAK2 V617F LT-HSCs heterogenity and expression profile using single-cell RNA sequencing.
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| Overall design |
LT-HSCs (Lineage-, c-Kit+, Sca-1+, CD150+, CD48-) were FACS-sorted from bone marrow of mice treated with pegylated IFN alpha (25µg/kg, s.c. in 100µl) for 24 hours or vehicle (saline) and used for downstream single-cell RNAseq.
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| Contributor(s) |
Stetka J, Luque Paz D, Börsch A, Skoda R |
| Citation(s) |
38493481 |
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| Submission date |
Feb 23, 2023 |
| Last update date |
Mar 29, 2024 |
| Contact name |
DBM Bioinformatics Core Facility |
| Phone |
+41612073541
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| Organization name |
University of Basel
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| Department |
Departement of Biomedicine
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| Street address |
Hebelstrasse 20
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| City |
Basel |
| State/province |
BS |
| ZIP/Postal code |
4053 |
| Country |
Switzerland |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (16)
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| GSM7060367 |
VF_IFN, cDNA |
| GSM7060368 |
DM_IFN, cDNA |
| GSM7060369 |
VF_V, cDNA |
| GSM7060370 |
VFDM_IFN, cDNA |
| GSM7060371 |
WT_IFN, cDNA |
| GSM7060372 |
VF_V, HTO |
| GSM7060373 |
VF_IFN, HTO |
| GSM7060374 |
WT_IFN, HTO |
| GSM7060375 |
VFDM_V, HTO |
| GSM7060376 |
VFDM_IFN, HTO |
| GSM7060377 |
WT_V, HTO |
| GSM7060378 |
DM_IFN, HTO |
| GSM7060379 |
DM_V, HTO |
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| Relations |
| BioProject |
PRJNA938038 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE225918_CreERT2_hsa_JAK2_201_sequence_V617F.fa.gz |
1.8 Kb |
(ftp)(http) |
FA |
| GSE225918_CreERT2_hsa_JAK2_201_sequence_V617F.gtf.gz |
257 b |
(ftp)(http) |
GTF |
| GSE225918_counts_HTO.tsv.gz |
350.2 Kb |
(ftp)(http) |
TSV |
| GSE225918_counts_cDNA.tsv.gz |
133.7 Mb |
(ftp)(http) |
TSV |
| GSE225918_hto.txt.gz |
80 b |
(ftp)(http) |
TXT |
| GSE225918_tsne_hto_clusters.tsv.gz |
1.0 Mb |
(ftp)(http) |
TSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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