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Series GSE74246 Query DataSets for GSE74246
Status Public on Jun 01, 2016
Title Unstranded RNA sequencing data
Organism Homo sapiens
Experiment type Expression 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 Transcription profiles of hematopoietic and leukemic cell types, assayed using unstranded RNA-seq, across 13 normal hematopoietic cell types and 3 acute myeloid leukemia cell types. The complete data set contains a total of 81 samples.
Contributor(s) Buenrostro J
Citation(s) 27526324
Submission date Oct 21, 2015
Last update date May 15, 2019
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 (2)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (81)
GSM1915578 1022-Bcell
GSM1915579 1022-CD4Tcell
GSM1915580 1022-CD8Tcell
This SubSeries is part of SuperSeries:
GSE75384 Lineage-specific and single cell chromatin accessibility charts human hematopoiesis and leukemia evolution
BioProject PRJNA299579
SRA SRP065216

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Supplementary file Size Download File type/resource
GSE74246_RNAseq_All_Counts.txt.gz 1.9 Mb (ftp)(http) TXT
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