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Series GSE74310 Query DataSets for GSE74310
Status Public on Jun 01, 2016
Title Single-cell chromatin accessibility data using scATAC-seq
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary A single hematopoietic stem cell can give rise to all blood cells with remarkable fidelity. Here, we define the chromatin accessibility and transcriptional landscape controlling this process in thirteen primary cell types that traverse the hematopoietic hierarchy. Exploiting the finding that enhancer landscapes better reflect cell identity than mRNA levels, we enable "enhancer cytometry" for accurate enumeration of pure cell types from complex populations. We further reveal the lineage ontogeny of genetic elements linked to diverse human diseases. In acute myeloid leukemia, chromatin accessibility reveals distinctive regulatory evolution in pre-leukemic HSCs (pHSCs), leukemia stem cells, and leukemic blasts. These leukemic cells demonstrate unique lineage infidelity, confirmed by single cell regulomes. We further show that pHSCs have a competitive advantage that is conferred by reduced chromatin accessibility at HOXA9 targets and is associated with adverse patient outcomes. Thus, regulome dynamics can provide diverse insights into human hematopoietic development and disease.
Overall design Single-cell ATAC-seq of LMPPs, Monocytes, LSCs and Luekemic blast cells.
Contributor(s) Buenrostro J
Citation(s) 27526324
Submission date Oct 23, 2015
Last update date Mar 05, 2024
Contact name Jason Daniel Buenrostro
Organization name Broad Institute
Street address 415 Main Street
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (576)
GSM1916686 singles-SU070-Leuk-1
GSM1916687 singles-SU070-Leuk-2
GSM1916688 singles-SU070-Leuk-3
This SubSeries is part of SuperSeries:
GSE75384 Lineage-specific and single cell chromatin accessibility charts human hematopoiesis and leukemia evolution
BioProject PRJNA299657
SRA SRP065190

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE74310_scATACseq_All_Counts.txt.gz 11.7 Mb (ftp)(http) TXT
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