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Series GSE183267 Query DataSets for GSE183267
Status Public on Sep 30, 2021
Title Discrete regulatory modules instruct hematopoietic lineage commitment and differentiation [scRNA-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Lineage commitment and differentiation is driven by the concerted action of master transcriptional regulators at their target chromatin sites. Multiple efforts have characterized the key transcription factors (TFs) that determine the various hematopoietic lineages. However, the temporal interactions between individual TFs and their chromatin targets during differentiation and how these interactions dictate lineage commitment remains poorly understood. We performed dense, daily, temporal profiling of chromatin accessibility (DNase I-seq) and gene expression changes (total RNA-seq) along ex vivo human erythropoiesis to comprehensively define developmentally regulated DNase I hypersensitive sites (DHSs) and transcripts. We link both distal DHSs to their target gene promoters and individual TFs to their target DHSs, revealing that the regulatory landscape is organized in distinct sequential regulatory modules that regulate lineage restriction and maturation. Finally, direct comparison of transcriptional dynamics (bulk and single-cell) and lineage potential between erythropoiesis and megakaryopoiesis uncovers differential fate commitment dynamics between the two lineages as they exit the stem and progenitor stage. Collectively, these data provide novel insights into the global regulatory landscape during hematopoiesis.
 
Overall design Total RNA-seq from bulk ex vivo erythroid differentiation cultures starting from GCSF-mobilized PBMC-derived CD34+ cells from 3 healthy adult donors.
 
Contributor(s) Georgolopoulos G, Psatha N, Iwata M, Nishida A, Som T, Yiangou M, Stamatoyannopoulos JA, Vierstra J
Citation(s) 34815405
Submission date Sep 02, 2021
Last update date Dec 10, 2021
Contact name Grigorios Georgolopoulos
E-mail(s) ggeorgol@altius.org
Organization name Altius Institute
Street address 2211 Elliott Ave #400
City Seattle
State/province WA
ZIP/Postal code 98121
Country USA
 
Platforms (1)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (11)
GSM5554280 CD34_uncultured scRNA-seq
GSM5554281 Ex_vivo_Ery_day_2 scRNA-seq
GSM5554282 Ex_vivo_Ery_day_4 scRNA-seq
This SubSeries is part of SuperSeries:
GSE182816 Discrete regulatory modules instruct hematopoietic lineage commitment and differentiation
Relations
BioProject PRJNA759865
SRA SRP335385

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Supplementary file Size Download File type/resource
GSE183267_RAW.tar 251.1 Mb (http)(custom) TAR (of MTX, TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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