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Series GSE148746 Query DataSets for GSE148746
Status Public on May 02, 2022
Title Concurrent stem- and lineage-affiliated chromatin programs precede hematopoietic lineage restriction
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary The emerging notion of hematopoietic stem- and progenitor cells (HSPCs) as a low-primed cloud without sharply demarcated gene expression programs raises the question on how cellular fate options emerge, and at which stem-like stage lineage priming is initiated. Here we investigated single-cell chromatin accessibility of Lineage-, cKit+, Sca1+ (LSK) HSPCs spanning the early differentiation landscape. Application of a signal-processing algorithm to detect transition points corresponding to massive alterations in accessibility of 521 transcription factor-motifs revealed a population of LSK FMS-like tyrosine kinase 3(Flt3)intCD9high cells that concurrently display stem-like and lineage-affiliated chromatin signatures pointing to simultaneous gain of both Lympho-Myeloid and Megakaryocyte-Erythroid programs. Molecularly and functionally, these cells position between stem cells and committed progenitors, display multi-lineage capacity in vitro and in vivo, but lack self-renewal activity. This integrative molecular analysis resolves the heterogeneity of cells along hematopoietic differentiation trajectories, and permits investigation of chromatin-mediated transition between multipotency and lineage restriction.
Overall design Single-cell ATAC-Seq and single cell RNA-Seq
Web link
Contributor(s) Safi F, Dhapola P, Thakur R, Karlsson G
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BioProject PRJNA625393
Submission date Apr 15, 2020
Last update date May 04, 2022
Contact name Göran Karlsson
Phone +46 462221261
Organization name Lund University
Department Division of Molecular Hematology
Lab Stem cells and leukemia lab
Street address Kilinkgatan 26 BMC B12
City Lund
State/province Scania
ZIP/Postal code 221 84
Country Sweden
Platforms (2)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (11)
GSM4478152 scATAC-Seq library of LTHSC cells
GSM4478153 scATAC-Seq library of STHSC cells
GSM4478154 scATAC-Seq library of MPP2 cells
SRA SRP256408

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE148746_RAW.tar 379.8 Mb (http)(custom) TAR (of TAR)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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